Title: R Repositories Data
Description: Retrieve metadata about packages from repositories to explore
package dependencies, links between help pages, aliases, package
availability on a given date, and other repository-dependent outcome.
In addition, it provides access to information about the processes at CRAN.
This metadata can be used to help package maintainers and users navigate
changes to dependencies and with reproducibility.
Author: Lluis Revilla Sancho [aut, cre, cph]
Maintainer: Lluis Revilla Sancho <lluis.revilla@gmail.com>
This is a re-admission after prior archival of version 0.1.5 dated 2025-09-25
Diff between repo.data versions 0.1.5 dated 2025-09-25 and 0.2.2 dated 2026-06-20
repo.data-0.1.5/repo.data/R/cran_history.R |only repo.data-0.1.5/repo.data/R/sysdata.rda |only repo.data-0.1.5/repo.data/man/alias2df.Rd |only repo.data-0.1.5/repo.data/man/cran_history.Rd |only repo.data-0.1.5/repo.data/man/split_anchor.Rd |only repo.data-0.1.5/repo.data/man/targets2files.Rd |only repo.data-0.1.5/repo.data/tests/test-all.R |only repo.data-0.2.2/repo.data/DESCRIPTION | 20 repo.data-0.2.2/repo.data/MD5 | 178 +++---- repo.data-0.2.2/repo.data/NAMESPACE | 9 repo.data-0.2.2/repo.data/NEWS.md | 6 repo.data-0.2.2/repo.data/R/aaa.R | 9 repo.data-0.2.2/repo.data/R/alias_utils.R | 45 - repo.data-0.2.2/repo.data/R/arch_utils.R | 14 repo.data-0.2.2/repo.data/R/base_alias.R | 4 repo.data-0.2.2/repo.data/R/base_help.R | 51 +- repo.data-0.2.2/repo.data/R/base_xrefs.R | 63 +- repo.data-0.2.2/repo.data/R/bioconductor.R | 19 repo.data-0.2.2/repo.data/R/cran_actions.R | 74 ++ repo.data-0.2.2/repo.data/R/cran_alias.R | 25 repo.data-0.2.2/repo.data/R/cran_archive.R | 73 +- repo.data-0.2.2/repo.data/R/cran_comments.R | 22 repo.data-0.2.2/repo.data/R/cran_doom.R | 3 repo.data-0.2.2/repo.data/R/cran_help.R | 67 +- repo.data-0.2.2/repo.data/R/cran_maintainers.R | 31 - repo.data-0.2.2/repo.data/R/cran_snapshot.R | 20 repo.data-0.2.2/repo.data/R/cran_version.R |only repo.data-0.2.2/repo.data/R/cran_xrefs.R | 160 +----- repo.data-0.2.2/repo.data/R/data.R | 5 repo.data-0.2.2/repo.data/R/dependencies.R | 124 ++-- repo.data-0.2.2/repo.data/R/environment.R |only repo.data-0.2.2/repo.data/R/issues.R |only repo.data-0.2.2/repo.data/R/meta.R |only repo.data-0.2.2/repo.data/R/package_date.R | 22 repo.data-0.2.2/repo.data/R/repo.data-package.R | 1 repo.data-0.2.2/repo.data/R/repos.R | 37 - repo.data-0.2.2/repo.data/R/utils.R | 196 +++---- repo.data-0.2.2/repo.data/R/versions.R | 2 repo.data-0.2.2/repo.data/R/xrefs_utils.R | 254 +++++----- repo.data-0.2.2/repo.data/README.md | 34 - repo.data-0.2.2/repo.data/build/vignette.rds |binary repo.data-0.2.2/repo.data/data/os_alias.rda |binary repo.data-0.2.2/repo.data/inst/WORDLIST | 1 repo.data-0.2.2/repo.data/inst/doc/repo.data.R | 12 repo.data-0.2.2/repo.data/inst/doc/repo.data.Rmd | 22 repo.data-0.2.2/repo.data/inst/doc/repo.data.html | 141 ++--- repo.data-0.2.2/repo.data/inst/scripts/cran_actions.R | 15 repo.data-0.2.2/repo.data/inst/scripts/dependency_evolution.R | 6 repo.data-0.2.2/repo.data/inst/scripts/pkg4.2.rds |only repo.data-0.2.2/repo.data/inst/scripts/pkgstats-CRAN-current.Rds |only repo.data-0.2.2/repo.data/man/alias.Rd |only repo.data-0.2.2/repo.data/man/base_alias.Rd | 5 repo.data-0.2.2/repo.data/man/base_help_cliques.Rd | 6 repo.data-0.2.2/repo.data/man/base_help_pages_not_linked.Rd | 6 repo.data-0.2.2/repo.data/man/base_help_pages_wo_links.Rd | 6 repo.data-0.2.2/repo.data/man/base_links.Rd | 10 repo.data-0.2.2/repo.data/man/base_pages_links.Rd | 8 repo.data-0.2.2/repo.data/man/base_pkges_links.Rd | 8 repo.data-0.2.2/repo.data/man/base_targets_links.Rd | 8 repo.data-0.2.2/repo.data/man/cran_actions.Rd | 28 + repo.data-0.2.2/repo.data/man/cran_alias.Rd | 19 repo.data-0.2.2/repo.data/man/cran_archive.Rd | 14 repo.data-0.2.2/repo.data/man/cran_comments.Rd | 12 repo.data-0.2.2/repo.data/man/cran_date.Rd | 16 repo.data-0.2.2/repo.data/man/cran_doom.Rd | 25 repo.data-0.2.2/repo.data/man/cran_help_cliques.Rd | 21 repo.data-0.2.2/repo.data/man/cran_help_pages_not_linked.Rd | 6 repo.data-0.2.2/repo.data/man/cran_help_pages_wo_links.Rd | 6 repo.data-0.2.2/repo.data/man/cran_issues.Rd |only repo.data-0.2.2/repo.data/man/cran_links.Rd | 21 repo.data-0.2.2/repo.data/man/cran_pages_links.Rd | 11 repo.data-0.2.2/repo.data/man/cran_pkges_links.Rd | 9 repo.data-0.2.2/repo.data/man/cran_snapshot.Rd | 16 repo.data-0.2.2/repo.data/man/cran_targets_links.Rd | 11 repo.data-0.2.2/repo.data/man/cran_version.Rd |only repo.data-0.2.2/repo.data/man/duplicated_alias.Rd | 20 repo.data-0.2.2/repo.data/man/links.Rd |only repo.data-0.2.2/repo.data/man/os_alias.Rd | 16 repo.data-0.2.2/repo.data/man/package_date.Rd | 16 repo.data-0.2.2/repo.data/man/package_date_actions.Rd | 9 repo.data-0.2.2/repo.data/man/package_dependencies.Rd | 7 repo.data-0.2.2/repo.data/man/package_repos.Rd | 18 repo.data-0.2.2/repo.data/man/repo.data-package.Rd | 11 repo.data-0.2.2/repo.data/man/repos_dependencies.Rd | 16 repo.data-0.2.2/repo.data/man/update_dependencies.Rd | 16 repo.data-0.2.2/repo.data/tests/spelling.R | 5 repo.data-0.2.2/repo.data/tests/src |only repo.data-0.2.2/repo.data/tests/test-actions.R |only repo.data-0.2.2/repo.data/tests/test-alias.R |only repo.data-0.2.2/repo.data/tests/test-bioconductor.R |only repo.data-0.2.2/repo.data/tests/test-cran_actions.R |only repo.data-0.2.2/repo.data/tests/test-cran_archive.R |only repo.data-0.2.2/repo.data/tests/test-cran_doom.R | 7 repo.data-0.2.2/repo.data/tests/test-cran_history.R |only repo.data-0.2.2/repo.data/tests/test-cran_issues.R |only repo.data-0.2.2/repo.data/tests/test-cran_targets_links.R |only repo.data-0.2.2/repo.data/tests/test-cran_version.R |only repo.data-0.2.2/repo.data/tests/test-dates.R |only repo.data-0.2.2/repo.data/tests/test-help.R |only repo.data-0.2.2/repo.data/tests/test-links.R |only repo.data-0.2.2/repo.data/tests/test-maintainers.R |only repo.data-0.2.2/repo.data/tests/test-package_date.R | 5 repo.data-0.2.2/repo.data/tests/test-package_repos.R |only repo.data-0.2.2/repo.data/tests/test-update_dependencies.R | 19 repo.data-0.2.2/repo.data/vignettes/repo.data.Rmd | 22 105 files changed, 1211 insertions(+), 1013 deletions(-)
Title: List Things to Do
Description: Manage a 'GitHub' problem using R: wrangle issues, labels and
milestones. It includes functions for storing, prioritizing (sorting),
displaying, adding, deleting, and selecting (filtering) issues based
on qualitative and quantitative information. Issues (labels and
milestones) are written in lists and categorized into the S3 class to
be easily manipulated as datasets in R.
Author: Tanguy Barthelemy [aut, cre, art]
Maintainer: Tanguy Barthelemy <tanguy.barthelemy@insee.fr>
Diff between IssueTrackeR versions 1.3.1 dated 2025-10-27 and 1.4.0 dated 2026-06-20
IssueTrackeR-1.3.1/IssueTrackeR/man/sample.Rd |only IssueTrackeR-1.4.0/IssueTrackeR/DESCRIPTION | 10 IssueTrackeR-1.4.0/IssueTrackeR/LICENSE | 4 IssueTrackeR-1.4.0/IssueTrackeR/MD5 | 113 IssueTrackeR-1.4.0/IssueTrackeR/NAMESPACE | 162 IssueTrackeR-1.4.0/IssueTrackeR/NEWS.md | 239 IssueTrackeR-1.4.0/IssueTrackeR/R/IssueTrackeR-package.R | 39 IssueTrackeR-1.4.0/IssueTrackeR/R/check.R | 32 IssueTrackeR-1.4.0/IssueTrackeR/R/comments.R | 2 IssueTrackeR-1.4.0/IssueTrackeR/R/finding-objects.R | 452 IssueTrackeR-1.4.0/IssueTrackeR/R/format.R | 66 IssueTrackeR-1.4.0/IssueTrackeR/R/options.R |only IssueTrackeR-1.4.0/IssueTrackeR/R/plot.R |only IssueTrackeR-1.4.0/IssueTrackeR/R/print.R | 612 IssueTrackeR-1.4.0/IssueTrackeR/R/summary.R | 290 IssueTrackeR-1.4.0/IssueTrackeR/R/update_database.R | 23 IssueTrackeR-1.4.0/IssueTrackeR/R/utils.R | 18 IssueTrackeR-1.4.0/IssueTrackeR/R/wrangling_dataset_issues.R | 121 IssueTrackeR-1.4.0/IssueTrackeR/R/wrangling_dataset_labels.R | 36 IssueTrackeR-1.4.0/IssueTrackeR/R/wrangling_dataset_milestones.R | 48 IssueTrackeR-1.4.0/IssueTrackeR/R/wrangling_issues.R | 988 IssueTrackeR-1.4.0/IssueTrackeR/R/wrangling_repo.R | 9 IssueTrackeR-1.4.0/IssueTrackeR/R/write.R |only IssueTrackeR-1.4.0/IssueTrackeR/R/zzz.R | 30 IssueTrackeR-1.4.0/IssueTrackeR/README.md | 316 IssueTrackeR-1.4.0/IssueTrackeR/inst/WORDLIST | 58 IssueTrackeR-1.4.0/IssueTrackeR/inst/data_issues/closed_issues.yaml |10668 +++++----- IssueTrackeR-1.4.0/IssueTrackeR/inst/data_issues/generate-files.R | 10 IssueTrackeR-1.4.0/IssueTrackeR/inst/data_issues/list_labels.yaml | 132 IssueTrackeR-1.4.0/IssueTrackeR/inst/data_issues/list_milestones.yaml | 142 IssueTrackeR-1.4.0/IssueTrackeR/inst/data_issues/open_issues.yaml | 8184 ++++--- IssueTrackeR-1.4.0/IssueTrackeR/man/IssueTrackeR-package.Rd | 55 IssueTrackeR-1.4.0/IssueTrackeR/man/append.Rd | 67 IssueTrackeR-1.4.0/IssueTrackeR/man/author_last_comment.Rd | 68 IssueTrackeR-1.4.0/IssueTrackeR/man/format_issues.Rd | 98 IssueTrackeR-1.4.0/IssueTrackeR/man/format_labels.Rd | 75 IssueTrackeR-1.4.0/IssueTrackeR/man/format_milestones.Rd | 77 IssueTrackeR-1.4.0/IssueTrackeR/man/get.Rd | 264 IssueTrackeR-1.4.0/IssueTrackeR/man/get_all_repos.Rd | 70 IssueTrackeR-1.4.0/IssueTrackeR/man/get_nbr_comments.Rd | 68 IssueTrackeR-1.4.0/IssueTrackeR/man/new_issue.Rd | 212 IssueTrackeR-1.4.0/IssueTrackeR/man/new_issues.Rd | 258 IssueTrackeR-1.4.0/IssueTrackeR/man/plot.Rd |only IssueTrackeR-1.4.0/IssueTrackeR/man/print.Rd | 115 IssueTrackeR-1.4.0/IssueTrackeR/man/reset_options.Rd |only IssueTrackeR-1.4.0/IssueTrackeR/man/sample-issues.Rd |only IssueTrackeR-1.4.0/IssueTrackeR/man/summary.Rd | 92 IssueTrackeR-1.4.0/IssueTrackeR/man/unique-issues.Rd |only IssueTrackeR-1.4.0/IssueTrackeR/man/update_database.Rd | 114 IssueTrackeR-1.4.0/IssueTrackeR/man/with_comments.Rd | 66 IssueTrackeR-1.4.0/IssueTrackeR/man/with_labels.Rd | 64 IssueTrackeR-1.4.0/IssueTrackeR/man/with_text.Rd | 84 IssueTrackeR-1.4.0/IssueTrackeR/man/write.Rd | 203 IssueTrackeR-1.4.0/IssueTrackeR/tests/spelling.R | 14 IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat.R | 24 IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat/data |only IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat/helper.R | 64 IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat/test-check.R | 168 IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat/test-extract.R |only IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat/test-format_timestamp.R | 28 IssueTrackeR-1.4.0/IssueTrackeR/tests/testthat/test-get_issues.R | 114 61 files changed, 14107 insertions(+), 11159 deletions(-)
Title: Bayesian Dynamic Borrowing with Flexible Baseline Hazard
Function
Description: Allows Bayesian borrowing from a historical dataset for time-to-
event data. A flexible baseline hazard function is achieved via a piecewise
exponential likelihood with time varying split points and smoothing prior on the
historic baseline hazards. The method is described in Scott and Lewin (2026)
<doi:10.1093/biostatistics/kxag006>, and a paper focused on the software is
in Scott, Axillus, Lewin and Izmirlian (2026) <doi:10.48550/arXiv.2408.04327>.
Author: Darren Scott [aut],
Sophia Axillus [aut],
Grant Izmirlian [aut, cre]
Maintainer: Grant Izmirlian <grant.izmirlian@astrazeneca.com>
Diff between BayesFBHborrow versions 2.0.2 dated 2024-09-16 and 2.0.9 dated 2026-06-20
BayesFBHborrow-2.0.2/BayesFBHborrow/R/GibbsMH.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/RJMCMC.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/beta_updates.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/lambda_updates.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/outputs.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/piecewise_exp_cc-data.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/piecewise_exp_hist-data.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/posterior_updates.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/run_mcmc.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/utils.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/weibull_cc-data.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/R/weibull_hist-data.R |only BayesFBHborrow-2.0.2/BayesFBHborrow/data |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/BayesFBHborrow.NoBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/BayesFBHborrow.WBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/GibbsMH.NoBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/GibbsMH.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/GibbsMH.WBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-ICAR_calc.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-J_RJMCMC.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-J_RJMCMC_NoBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-beta.MH.RW.glm.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-beta_MH_MALA.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-beta_MH_NR.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-beta_MH_RW.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-beta_mom.NR.fun.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-beta_mom.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-birth_move.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-dataframe_fun.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-death_move.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-glmFit.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-input_check.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lambda_0_MH_cp.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lambda_0_MH_cp_NoBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lambda_MH_cp.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lambda_conj_prop.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lgamma_ratio.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-llikelihood_ratio_beta.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-llikelihood_ratio_lambda.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-log_likelihood.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-logsumexp.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lprop.dens.beta.NR.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-lprop_density_beta.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-ltau_dprior.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-mu_update.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-normalize_prob.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-nu_sigma_update.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-plot_hist.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-plot_matrix.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-plot_trace.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-predictive_hazard.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-predictive_hazard_ratio.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-predictive_survival.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-set_hyperparameters.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-set_tuning_parameters.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-shuffle_split_point_location.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-shuffle_split_point_location_NoBorrow.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-sigma2_update.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-smooth_hazard.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-smooth_survival.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/dot-tau_update.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/piecewise_exp_cc.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/piecewise_exp_hist.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/weibull_cc.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/man/weibull_hist.Rd |only BayesFBHborrow-2.0.2/BayesFBHborrow/tests |only BayesFBHborrow-2.0.9/BayesFBHborrow/DESCRIPTION | 31 BayesFBHborrow-2.0.9/BayesFBHborrow/MD5 | 103 -- BayesFBHborrow-2.0.9/BayesFBHborrow/NAMESPACE | 49 - BayesFBHborrow-2.0.9/BayesFBHborrow/R/BayesFBHborrow.R |only BayesFBHborrow-2.0.9/BayesFBHborrow/README.md |only BayesFBHborrow-2.0.9/BayesFBHborrow/inst |only BayesFBHborrow-2.0.9/BayesFBHborrow/man/BayesFBHborrow.Rd | 371 +++++++--- BayesFBHborrow-2.0.9/BayesFBHborrow/man/Combine.Rd |only BayesFBHborrow-2.0.9/BayesFBHborrow/man/coef.BayesFBHborrow.Rd | 79 +- BayesFBHborrow-2.0.9/BayesFBHborrow/man/genBFBHBdat.Rd |only BayesFBHborrow-2.0.9/BayesFBHborrow/man/group_summary.Rd | 71 + BayesFBHborrow-2.0.9/BayesFBHborrow/man/init_lambda_hyperparameters.Rd | 72 + BayesFBHborrow-2.0.9/BayesFBHborrow/man/plot.BayesFBHborrow.Rd | 94 +- BayesFBHborrow-2.0.9/BayesFBHborrow/man/read_haz_mcmc_smpls.Rd |only BayesFBHborrow-2.0.9/BayesFBHborrow/man/reexports.Rd |only BayesFBHborrow-2.0.9/BayesFBHborrow/man/summary.BayesFBHborrow.Rd | 83 +- BayesFBHborrow-2.0.9/BayesFBHborrow/man/update.BayesFBHborrow.Rd |only BayesFBHborrow-2.0.9/BayesFBHborrow/man/xifinder.Rd |only 84 files changed, 616 insertions(+), 337 deletions(-)
More information about BayesFBHborrow at CRAN
Permanent link
Title: TraMineR Extension
Description: Collection of ancillary functions and utilities to be used in conjunction with the 'TraMineR' package for sequence data exploration. Includes, among others, specific functions such as state survival plots, position-wise group-typical states, dynamic sequence indicators, and dissimilarities between event sequences. Also includes contributions by non-members of the TraMineR team such as methods for polyadic data and for the comparison of groups of sequences.
Author: Gilbert Ritschard [aut, cre, ths, cph] ,
Matthias Studer [aut] ,
Reto Buergin [aut] ,
Tim F. Liao [ctb] ,
Alexis Gabadinho [ctb],
Pierre-Alexandre Fonta [ctb],
Nicolas S. Muller [ctb],
Patrick Rousset [ctb]
Maintainer: Gilbert Ritschard <gilbert.ritschard@unige.ch>
Diff between TraMineRextras versions 0.6.8 dated 2024-08-17 and 0.6.9 dated 2026-06-20
DESCRIPTION | 20 ++++++------ MD5 | 24 +++++++-------- NAMESPACE | 5 ++- R/dissCompare.R | 58 ++++++++++++++++++++++++++---------- R/seqCompare.R | 67 +++++++++++++++++++++++++++++------------- R/seqpolyads.R | 17 ++++++++++ build/partial.rdb |binary inst/NEWS | 20 +++++++++++- inst/NEWS.Rd | 19 +++++++++++ man/TraMineRextras-package.Rd | 2 - man/dissCompare.Rd | 39 ++++++++++++++++++------ man/seqemlt.Rd | 5 ++- man/seqpolyads.Rd | 2 - 13 files changed, 205 insertions(+), 73 deletions(-)
More information about TraMineRextras at CRAN
Permanent link
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385>, Wilson (2025) <DOI:10.1002/mrm.30462> and
spectral alignment: Wilson (2018) <DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin.wilson111@gmail.com>
Diff between spant versions 4.1.0 dated 2026-05-21 and 4.2.0 dated 2026-06-20
DESCRIPTION | 8 - MD5 | 56 ++++----- NAMESPACE | 2 NEWS.md | 5 R/abfit.R | 182 ++++++++++++++++++++++++++---- R/basis_set.R | 26 ++++ R/fit_display.R | 12 + R/fit_svs.R | 51 ++++++-- R/fit_svs_edited.R | 26 +++- R/mrs_data_io.R | 5 R/mrs_data_proc.R | 78 ++++++++++-- R/mrs_read_nifti.R | 6 inst/doc/abfit-baseline-opts.html | 12 - inst/doc/spant-basis-simulation.html | 8 - inst/doc/spant-intro.html | 142 +++++++++++------------ inst/doc/spant-metabolite-simulation.html | 10 - inst/doc/spant-preprocessing.html | 14 +- man/abfit_opts.Rd | 14 ++ man/abfit_reg_opts.Rd | 17 ++ man/bc_poly.Rd | 5 man/comb_coils_mrsi_gls.Rd | 11 + man/comb_coils_svs_gls.Rd | 18 ++ man/fit_svs.Rd | 14 +- man/fit_svs_edited.Rd | 4 man/plot_tqn_fit_csv.Rd |only man/rm_basis_elements.Rd |only tests/testthat/abfit_res_coarse.rds |binary tests/testthat/abfit_res_default.rds |binary tests/testthat/abfit_res_fine.rds |binary tests/testthat/abfit_res_no_optim.rds |binary 30 files changed, 538 insertions(+), 188 deletions(-)
Title: Pricing Equity Derivatives with Extensions of Black-Scholes
Description: Algorithms to price American and European equity options,
convertible bonds and a variety of other financial derivatives. It
uses an extension of the usual Black-Scholes model in which jump to
default may occur at a probability specified by a power-law link
between stock price and hazard rate as found in the paper by
Takahashi, Kobayashi, and Nakagawa (2001)
<doi:10.3905/jfi.2001.319302>. We use ideas and techniques from
Andersen and Buffum (2002) <doi:10.2139/ssrn.355308> and Linetsky
(2006) <doi:10.1111/j.1467-9965.2006.00271.x>.
Author: Brian K. Boonstra [aut, cre]
Maintainer: Brian K. Boonstra <ragtop@boonstra.org>
Diff between ragtop versions 1.2.1 dated 2026-06-15 and 1.3.1 dated 2026-06-20
DESCRIPTION | 17 +++--- MD5 | 35 +++++++------- NAMESPACE | 2 NEWS.md | 6 ++ R/implicit.R | 8 --- R/matrix.R |only inst/doc/ragtop_convertibles_in_r.R | 12 +++- inst/doc/ragtop_convertibles_in_r.Rmd | 12 +++- inst/doc/ragtop_convertibles_in_r.html | 76 ++++++++++++++++--------------- man/construct_implicit_grid_structure.Rd | 1 man/find_present_value.Rd | 1 man/form_present_value_grid.Rd | 1 man/infer_conforming_time_grid.Rd | 1 man/integrate_pde.Rd | 1 man/iterate_grid_from_timestep.Rd | 1 man/pde_matrix_solve.Rd |only man/take_implicit_timestep.Rd | 1 man/timestep_instruments.Rd | 1 tests/testthat/test_matrix.R |only vignettes/ragtop_convertibles_in_r.Rmd | 12 +++- 20 files changed, 107 insertions(+), 81 deletions(-)
Title: Maximum Likelihood Estimation of Various Univariate and
Multivariate Distributions
Description: Several functions for maximum likelihood estimation of various univariate and multivariate distributions. The list includes more than 100 functions for univariate continuous and discrete distributions, distributions that lie on the real line, the positive line, interval restricted, circular distributions. Further, multivariate continuous and discrete distributions, distributions for compositional and directional data, etc. Some references include Johnson N. L., Kotz S. and Balakrishnan N. (1994). "Continuous Univariate Distributions, Volume 1" <ISBN:978-0-471-58495-7>, Johnson, Norman L. Kemp, Adrianne W. Kotz, Samuel (2005). "Univariate Discrete Distributions". <ISBN:978-0-471-71580-1> and Mardia, K. V. and Jupp, P. E. (2000). "Directional Statistics". <ISBN:978-0-471-95333-3>.
Author: Michail Tsagris [aut, cre],
Sofia Piperaki [aut],
Muhammad Imran [ctb],
Rafail Vargiakakis [aut],
Nikolaos Kontemeniotis [aut]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between MLE versions 1.7 dated 2026-03-27 and 1.8 dated 2026-06-20
DESCRIPTION | 10 +++--- MD5 | 8 ++--- NAMESPACE | 1 R/hspher.mle.R | 2 + man/hspher.mle.Rd | 81 ++++++++++++++++++++++++++++++++++++++++++++++-------- 5 files changed, 82 insertions(+), 20 deletions(-)
Title: A Toolkit for Using Whole Building Simulation Program
'EnergyPlus'
Description: A rich toolkit of using the whole building
simulation program 'EnergyPlus'(<https://energyplus.net>), which
enables programmatic navigation, modification of 'EnergyPlus' models
and makes it less painful to do parametric simulations and analysis.
Author: Hongyuan Jia [aut, cre, cph] ,
Adrian Chong [aut]
Maintainer: Hongyuan Jia <hongyuanjia@cqust.edu.cn>
Diff between eplusr versions 0.16.3 dated 2025-04-22 and 0.17.0 dated 2026-06-20
DESCRIPTION | 32 LICENSE | 4 MD5 | 143 NAMESPACE | 4 NEWS.md | 62 R/assert.R | 374 - R/constants.R | 520 + R/epw.R | 4449 +++++++-------- R/format.R | 2434 ++++---- R/geom.R | 1480 ++--- R/group.R | 3403 +++++------ R/idd.R | 49 R/iddobj.R | 3960 ++++++------- R/idf.R | 8010 +++++++++++++-------------- R/idfobj.R | 14 R/impl-epw.R | 5 R/impl-geom.R | 3664 ++++++------ R/impl-idd.R | 16 R/impl-idf.R | 298 - R/impl-idfobj.R | 512 - R/impl-viewer.R | 1939 +++--- R/impl.R | 5 R/install.R | 346 - R/job-json.R |only R/job-store.R |only R/job.R | 2867 ++++----- R/options.R | 2 R/param.R | 2147 ++++--- R/parse.R | 6 R/reload.R | 244 R/run.R | 9 R/standalone-schema.R |only R/sysdata.rda |binary R/transition.R |10934 ++++++++++++++++++++------------------ R/units.R | 416 - R/validate.R | 1532 ++--- R/zzz.R | 8 README.md | 12 man/EplusGroupJob.Rd | 2806 ++++----- man/EplusJob.Rd | 2814 ++++----- man/Epw.Rd | 4109 +++++++------- man/Idd.Rd | 2531 ++++---- man/Idf.Rd | 8748 +++++++++++++++--------------- man/IdfGeometry.Rd | 1270 ++-- man/IdfObject.Rd | 4382 +++++++-------- man/ParametricJob.Rd | 1849 +++--- man/energyplus.Rd | 492 - man/get_idf_table.Rd | 3 man/install_eplus.Rd | 2 man/parse_dots_value.Rd | 6 man/read_idf.Rd | 154 man/read_idfeditor_copy.Rd | 70 man/run_model.Rd | 380 - man/save_job.Rd |only man/use_eplus.Rd | 168 man/use_idd.Rd | 234 tests/testthat/test-epw.R | 1078 +-- tests/testthat/test-group.R | 452 - tests/testthat/test-idd.R | 592 +- tests/testthat/test-iddobj.R | 628 +- tests/testthat/test-idf.R | 65 tests/testthat/test-idfobj.R | 1343 ++-- tests/testthat/test-impl-idd.R | 6 tests/testthat/test-impl-idf.R | 5395 +++++++++--------- tests/testthat/test-impl-idfobj.R | 445 - tests/testthat/test-impl.R | 266 tests/testthat/test-install.R | 272 tests/testthat/test-job-json.R |only tests/testthat/test-param.R | 535 + tests/testthat/test-parse.R | 1174 ++-- tests/testthat/test-reload.R | 190 tests/testthat/test-sql.R | 362 - tests/testthat/test-transition.R | 480 + tests/testthat/test-units.R | 64 tests/testthat/test-validate.R | 526 - 75 files changed, 48430 insertions(+), 45361 deletions(-)
More information about survSampleSize at CRAN
Permanent link
Title: Distributed Trimmed Scores Regression for Handling Missing Data
Description: Provides functions for handling missing data using Distributed Trimmed Scores Regression and other imputation methods. It includes facilities for data imputation, evaluation metrics, and clustering analysis. It is designed to work in distributed computing environments to handle large datasets efficiently. The philosophy of the package is described in Guo G. (2024) <doi:10.1080/03610918.2022.2091779>.
Author: Guangbao Guo [aut, cre, cph] ,
Ruiling Niu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
This is a re-admission after prior archival of version 0.2.0 dated 2025-04-27
Diff between DTSR versions 0.2.0 dated 2025-04-27 and 0.2.2 dated 2026-06-20
DTSR-0.2.0/DTSR/man/mean.Rd |only DTSR-0.2.2/DTSR/DESCRIPTION | 15 + DTSR-0.2.2/DTSR/MD5 | 24 +-- DTSR-0.2.2/DTSR/NAMESPACE | 51 +++--- DTSR-0.2.2/DTSR/R/DRPCA.R | 29 ++- DTSR-0.2.2/DTSR/R/KNN.R | 81 +++------- DTSR-0.2.2/DTSR/R/MLPCA.R | 301 ++++++++++++++++---------------------- DTSR-0.2.2/DTSR/R/NIPALS.R | 277 +++++++++++++++------------------- DTSR-0.2.2/DTSR/R/RPCA.R | 169 ++++++++------------- DTSR-0.2.2/DTSR/R/SVD.R | 62 +++---- DTSR-0.2.2/DTSR/R/mean.R | 72 ++------- DTSR-0.2.2/DTSR/man/DRPCA.Rd | 13 + DTSR-0.2.2/DTSR/man/KNN.Rd | 2 DTSR-0.2.2/DTSR/man/meanImpute.Rd |only 14 files changed, 476 insertions(+), 620 deletions(-)
More information about CamelRatiosIndex at CRAN
Permanent link
Title: Descriptive Statistics, Transition Plots, and More
Description: Utilities for common medical-statistics graphics
and tables, including automatic creation of publication-ready "Table 1"
summaries; transition (Sankey) plots; flow-chart helpers that extend the
grid package; Bézier lines and arrows; and a singular-value-decomposition-
based variable-selection method.
Author: Max Gordon [aut, cre]
Maintainer: Max Gordon <max@gforge.se>
Diff between Gmisc versions 3.3.0 dated 2026-06-02 and 3.4.0 dated 2026-06-20
Gmisc-3.3.0/Gmisc/tests/testthat/test-fig_caption.R |only Gmisc-3.4.0/Gmisc/DESCRIPTION | 8 Gmisc-3.4.0/Gmisc/MD5 | 130 Gmisc-3.4.0/Gmisc/NAMESPACE | 8 Gmisc-3.4.0/Gmisc/NEWS.md | 26 Gmisc-3.4.0/Gmisc/R/boxGrobs_align.R | 108 Gmisc-3.4.0/Gmisc/R/boxGrobs_align_pr_helpers.R | 100 Gmisc-3.4.0/Gmisc/R/boxGrobs_boxGrob.R | 38 Gmisc-3.4.0/Gmisc/R/boxGrobs_boxShapes.R | 25 Gmisc-3.4.0/Gmisc/R/boxGrobs_connect.R | 77 Gmisc-3.4.0/Gmisc/R/boxGrobs_connect_pr_helpers.R | 62 Gmisc-3.4.0/Gmisc/R/boxGrobs_connect_pr_many_to_one_fan_in_on_top_boxes.R | 2 Gmisc-3.4.0/Gmisc/R/boxGrobs_connect_pr_single_boxes.R | 50 Gmisc-3.4.0/Gmisc/R/boxGrobs_connect_strategies.R | 5 Gmisc-3.4.0/Gmisc/R/boxGrobs_coords.R | 16 Gmisc-3.4.0/Gmisc/R/boxGrobs_equalizeWidths.R | 153 Gmisc-3.4.0/Gmisc/R/boxGrobs_move.R | 22 Gmisc-3.4.0/Gmisc/R/boxGrobs_position.R |only Gmisc-3.4.0/Gmisc/R/boxGrobs_prCreateBoxCoordinates.R | 38 Gmisc-3.4.0/Gmisc/R/boxGrobs_print.Gmisc_list_of_boxes.R | 20 Gmisc-3.4.0/Gmisc/R/boxGrobs_s3_append.R | 40 Gmisc-3.4.0/Gmisc/R/boxGrobs_s3_connect.R | 308 + Gmisc-3.4.0/Gmisc/R/boxGrobs_s3_phaseLabel.R |only Gmisc-3.4.0/Gmisc/R/boxGrobs_s3_spread.R | 2 Gmisc-3.4.0/Gmisc/R/boxGrobs_spread.R | 122 Gmisc-3.4.0/Gmisc/R/boxGrobs_subelement_select.R |only Gmisc-3.4.0/Gmisc/README.md | 180 Gmisc-3.4.0/Gmisc/inst/doc/Descriptives.html | 4 Gmisc-3.4.0/Gmisc/inst/doc/Grid-based_flowcharts.R | 265 + Gmisc-3.4.0/Gmisc/inst/doc/Grid-based_flowcharts.Rmd | 324 + Gmisc-3.4.0/Gmisc/inst/doc/Grid-based_flowcharts.html | 1948 +++++----- Gmisc-3.4.0/Gmisc/inst/doc/Transition-class.html | 4 Gmisc-3.4.0/Gmisc/inst/doc/transitionPlot.html | 4 Gmisc-3.4.0/Gmisc/inst/examples/alignBox_ex.R | 29 Gmisc-3.4.0/Gmisc/inst/examples/connectGrob_example.R | 93 Gmisc-3.4.0/Gmisc/inst/examples/spreadBox_ex.R | 14 Gmisc-3.4.0/Gmisc/man/align.Rd | 59 Gmisc-3.4.0/Gmisc/man/append.Rd | 3 Gmisc-3.4.0/Gmisc/man/box.Rd | 11 Gmisc-3.4.0/Gmisc/man/boxHeaderGrob.Rd | 3 Gmisc-3.4.0/Gmisc/man/boxPropGrob.Rd | 3 Gmisc-3.4.0/Gmisc/man/boxShapes.Rd | 3 Gmisc-3.4.0/Gmisc/man/connect.Rd | 165 Gmisc-3.4.0/Gmisc/man/coords.Rd | 17 Gmisc-3.4.0/Gmisc/man/distance.Rd | 3 Gmisc-3.4.0/Gmisc/man/equalizeHeights.Rd |only Gmisc-3.4.0/Gmisc/man/equalizeWidths.Rd | 13 Gmisc-3.4.0/Gmisc/man/figures |only Gmisc-3.4.0/Gmisc/man/flowchart.Rd | 3 Gmisc-3.4.0/Gmisc/man/insert.Rd | 16 Gmisc-3.4.0/Gmisc/man/move.Rd | 3 Gmisc-3.4.0/Gmisc/man/moveBox.Rd | 17 Gmisc-3.4.0/Gmisc/man/phaseLabel.Rd |only Gmisc-3.4.0/Gmisc/man/position.Rd |only Gmisc-3.4.0/Gmisc/man/prCreateBoxCoordinates.Rd | 11 Gmisc-3.4.0/Gmisc/man/prGetBoxAxisDefaults.Rd | 3 Gmisc-3.4.0/Gmisc/man/print.Gmisc_list_of_boxes.Rd | 6 Gmisc-3.4.0/Gmisc/man/spread.Rd | 46 Gmisc-3.4.0/Gmisc/tests/testthat/_snaps |only Gmisc-3.4.0/Gmisc/tests/testthat/test-align-pipeline.R | 78 Gmisc-3.4.0/Gmisc/tests/testthat/test-boxGrob-corner-radius.R |only Gmisc-3.4.0/Gmisc/tests/testthat/test-boxGrob_move.R | 18 Gmisc-3.4.0/Gmisc/tests/testthat/test-boxGrob_spread.R | 106 Gmisc-3.4.0/Gmisc/tests/testthat/test-boxShapes.R | 43 Gmisc-3.4.0/Gmisc/tests/testthat/test-connectGrob-axis-connectors.R |only Gmisc-3.4.0/Gmisc/tests/testthat/test-connectGrob-spread-assignment.R |only Gmisc-3.4.0/Gmisc/tests/testthat/test-connectGrob_fan_in_top.R | 21 Gmisc-3.4.0/Gmisc/tests/testthat/test-equalizeHeights.R |only Gmisc-3.4.0/Gmisc/tests/testthat/test-flowchart-issue76-connectors.R |only Gmisc-3.4.0/Gmisc/tests/testthat/test-s3-api-design.R | 185 Gmisc-3.4.0/Gmisc/tests/testthat/test-subelement-regex.R |only Gmisc-3.4.0/Gmisc/vignettes/Grid-based_flowcharts.Rmd | 324 + 72 files changed, 4109 insertions(+), 1276 deletions(-)
Title: A Common API to Clustering
Description: A common interface to specifying clustering models, in the
same style as 'parsnip'. Creates unified interface across different
functions and computational engines.
Author: Emil Hvitfeldt [aut, cre] ,
Kelly Bodwin [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>
Diff between tidyclust versions 0.3.0 dated 2026-05-21 and 0.3.1 dated 2026-06-20
DESCRIPTION | 8 +-- MD5 | 68 +++++++++++++-------------- NEWS.md | 8 +++ R/hier_clust.R | 30 +++++------ R/metric-aaa.R | 53 +++++++++++++++++++-- man/cluster_metric_set.Rd | 10 ++- man/details_db_clust_dbscan.Rd | 6 +- man/details_db_clust_hdbscan.Rd | 2 man/details_gm_clust_mclust.Rd | 7 +- man/details_mean_shift_LPCM.Rd | 5 - man/details_mean_shift_meanShiftR.Rd | 5 - man/finalize_model_tidyclust.Rd | 2 man/fit.Rd | 2 man/hier_clust.Rd | 18 ++++++- man/linkage_method.Rd | 5 - man/new_cluster_metric.Rd | 32 +++++++++++- man/reexports.Rd | 10 +-- man/rmd/db_clust_dbscan.Rmd | 4 - man/rmd/db_clust_dbscan.md | 4 - man/rmd/db_clust_hdbscan.Rmd | 2 man/rmd/db_clust_hdbscan.md | 2 man/rmd/gm_clust_mclust.Rmd | 4 - man/rmd/gm_clust_mclust.md | 4 - man/rmd/mean_shift_LPCM.Rmd | 4 - man/rmd/mean_shift_LPCM.md | 4 - man/rmd/mean_shift_meanShiftR.Rmd | 4 - man/rmd/mean_shift_meanShiftR.md | 4 - man/silhouette_avg.Rd | 10 +-- man/sse_ratio.Rd | 8 +-- man/sse_total.Rd | 8 +-- man/sse_within_total.Rd | 8 +-- man/tidyclust-package.Rd | 1 man/tidyclust_update.Rd | 2 man/tune_cluster.Rd | 4 - tests/testthat/test-cluster_metric_set.R | 78 +++++++++++++++++++++++++++++++ 35 files changed, 297 insertions(+), 129 deletions(-)
Title: High-Performance Phenotypic Data Pipelines for Breeding
Description: A streamlined toolkit specifically designed for genomic
selection and quantitative genetics in animal breeding. It provides
high-performance data manipulation backed by 'data.table', focusing on
multi-breed and multi-trait nested grouping operations. Features
include zero-copy data importing, automated cross-validation
splitting, and robust tools to generate and batch-export formatted
phenotypic files required by various breeding software (e.g.,
'ASReml-R', 'HIBLUP', 'DMU'), heavily optimizing iterative variance
component analysis and large-scale evaluation pipelines.
Author: Guo Meng [aut, cre],
Guo Meng [cph]
Maintainer: Guo Meng <tony2015116@163.com>
Diff between mintyr versions 0.1.2 dated 2025-10-25 and 0.1.3 dated 2026-06-20
mintyr-0.1.2/mintyr/R/convert_nest.R |only mintyr-0.1.2/mintyr/R/get_filename.R |only mintyr-0.1.2/mintyr/R/get_path_segment.R |only mintyr-0.1.2/mintyr/man/convert_nest.Rd |only mintyr-0.1.2/mintyr/man/get_filename.Rd |only mintyr-0.1.2/mintyr/man/get_path_segment.Rd |only mintyr-0.1.2/mintyr/tests |only mintyr-0.1.3/mintyr/DESCRIPTION | 27 mintyr-0.1.3/mintyr/LICENSE | 2 mintyr-0.1.3/mintyr/MD5 | 96 - mintyr-0.1.3/mintyr/NAMESPACE | 39 mintyr-0.1.3/mintyr/NEWS.md | 7 mintyr-0.1.3/mintyr/R/c2p_nest.R | 351 +++-- mintyr-0.1.3/mintyr/R/export_list.R | 230 ++- mintyr-0.1.3/mintyr/R/export_nest.R | 462 +++---- mintyr-0.1.3/mintyr/R/export_xlsx.R |only mintyr-0.1.3/mintyr/R/format_digits.R | 219 ++- mintyr-0.1.3/mintyr/R/get_path_info.R |only mintyr-0.1.3/mintyr/R/import_csv.R | 245 ++- mintyr-0.1.3/mintyr/R/import_xlsx.R | 409 ++++-- mintyr-0.1.3/mintyr/R/nest_cv.R | 284 ++-- mintyr-0.1.3/mintyr/R/r2p_nest.R | 203 +-- mintyr-0.1.3/mintyr/R/split_cv.R | 263 ++-- mintyr-0.1.3/mintyr/R/top_perc.R | 294 ++-- mintyr-0.1.3/mintyr/R/w2l_nest.R | 285 ++-- mintyr-0.1.3/mintyr/R/w2l_split.R | 299 ++-- mintyr-0.1.3/mintyr/R/zzz.R | 22 mintyr-0.1.3/mintyr/README.md | 42 mintyr-0.1.3/mintyr/inst/doc/get-started.R | 439 ++---- mintyr-0.1.3/mintyr/inst/doc/get-started.Rmd | 544 +++----- mintyr-0.1.3/mintyr/inst/doc/get-started.html | 1675 ++++++++++++-------------- mintyr-0.1.3/mintyr/man/c2p_nest.Rd | 158 +- mintyr-0.1.3/mintyr/man/export_list.Rd | 69 - mintyr-0.1.3/mintyr/man/export_nest.Rd | 150 -- mintyr-0.1.3/mintyr/man/export_xlsx.Rd |only mintyr-0.1.3/mintyr/man/format_digits.Rd | 71 - mintyr-0.1.3/mintyr/man/get_path_info.Rd |only mintyr-0.1.3/mintyr/man/import_csv.Rd | 108 - mintyr-0.1.3/mintyr/man/import_xlsx.Rd | 141 +- mintyr-0.1.3/mintyr/man/nest_cv.Rd | 88 - mintyr-0.1.3/mintyr/man/r2p_nest.Rd | 87 - mintyr-0.1.3/mintyr/man/split_cv.Rd | 95 - mintyr-0.1.3/mintyr/man/top_perc.Rd | 91 - mintyr-0.1.3/mintyr/man/w2l_nest.Rd | 99 - mintyr-0.1.3/mintyr/man/w2l_split.Rd | 114 - mintyr-0.1.3/mintyr/vignettes/get-started.Rmd | 544 +++----- 46 files changed, 4176 insertions(+), 4076 deletions(-)
Title: Parsing Glycan Structure Text Representations
Description: Provides functions to parse glycan structure text representations
into 'glyrepr' glycan structures. Currently, it supports StrucGP-style,
pGlyco-style, IUPAC-condensed, IUPAC-extended, IUPAC-short, WURCS,
Linear Code, and GlycoCT format. It also provides an automatic parser
to detect the format and parse the structure string.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glyparse versions 0.6.0 dated 2026-04-29 and 0.6.1 dated 2026-06-20
DESCRIPTION | 8 MD5 | 24 - NEWS.md | 8 R/parse-glycoct.R | 108 ++++++- R/parse-wurcs.R | 201 +++++++++++++- R/struc-parser-wrapper.R | 24 + README.md | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/glyparse.html | 380 +++++++++++++++------------ tests/testthat/test-na-support.R | 41 +- tests/testthat/test-parse-glycoct.R | 41 ++ tests/testthat/test-parse-wurcs.R | 504 ++++++++++++++++++++++++++++++++++++ 13 files changed, 1109 insertions(+), 238 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-08-27 2.0
2019-08-01 1.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-06 0.3.2
2025-01-08 0.3.1
2024-05-16 0.3.0
2024-01-19 0.2.0
2023-07-13 0.1.0
Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general
engine for big data processing, see <https://spark.apache.org/>. This
package supports connecting to local and remote Apache Spark clusters,
provides a 'dplyr' compatible back-end, and provides an interface to
Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut],
Kevin Kuo [aut] ,
Kevin Ushey [aut],
JJ Allaire [aut],
Samuel Macedo [ctb],
Hossein Falaki [aut],
Lu Wang [aut],
Andy Zhang [aut],
Yitao Li [aut] ,
Jozef Hajnala [ctb],
Maciej Szymkiewicz [ctb] ,
Wil Davis [ctb],
Edgar Ruiz [au [...truncated...]
Maintainer: Edgar Ruiz <edgar@rstudio.com>
Diff between sparklyr versions 1.9.4 dated 2026-04-18 and 1.9.5 dated 2026-06-20
sparklyr-1.9.4/sparklyr/tools/readme/databricks-connect.png |only sparklyr-1.9.4/sparklyr/tools/readme/ggplot2-1.png |only sparklyr-1.9.4/sparklyr/tools/readme/spark-connect-livy.png |only sparklyr-1.9.4/sparklyr/tools/readme/spark-connect.png |only sparklyr-1.9.4/sparklyr/tools/readme/spark-dataview.png |only sparklyr-1.9.4/sparklyr/tools/readme/sparklyr-diagram.png |only sparklyr-1.9.5/sparklyr/DESCRIPTION | 8 sparklyr-1.9.5/sparklyr/MD5 | 658 ++-- sparklyr-1.9.5/sparklyr/NAMESPACE | 1 sparklyr-1.9.5/sparklyr/NEWS.md | 13 sparklyr-1.9.5/sparklyr/R/arrow_data.R | 79 sparklyr-1.9.5/sparklyr/R/avro_utils.R | 20 sparklyr-1.9.5/sparklyr/R/config_spark.R | 106 sparklyr-1.9.5/sparklyr/R/connection_instances.R | 18 sparklyr-1.9.5/sparklyr/R/connection_progress.R | 21 sparklyr-1.9.5/sparklyr/R/connection_shinyapp.R | 6 sparklyr-1.9.5/sparklyr/R/connection_spark.R | 165 - sparklyr-1.9.5/sparklyr/R/core_config.R | 25 sparklyr-1.9.5/sparklyr/R/core_deserialize.R | 74 sparklyr-1.9.5/sparklyr/R/core_gateway.R | 73 sparklyr-1.9.5/sparklyr/R/core_invoke.R | 137 - sparklyr-1.9.5/sparklyr/R/core_jobj.R | 23 sparklyr-1.9.5/sparklyr/R/core_serialize.R | 21 sparklyr-1.9.5/sparklyr/R/core_utils.R | 7 sparklyr-1.9.5/sparklyr/R/data_copy.R | 79 sparklyr-1.9.5/sparklyr/R/data_csv.R | 43 sparklyr-1.9.5/sparklyr/R/data_interface.R | 1324 +++++----- sparklyr-1.9.5/sparklyr/R/databricks_connection.R | 3 sparklyr-1.9.5/sparklyr/R/dbi_spark_connection.R | 91 sparklyr-1.9.5/sparklyr/R/dbi_spark_result.R | 93 sparklyr-1.9.5/sparklyr/R/dbi_spark_table.R | 59 sparklyr-1.9.5/sparklyr/R/do_spark.R | 42 sparklyr-1.9.5/sparklyr/R/dplyr_do.R | 3 sparklyr-1.9.5/sparklyr/R/dplyr_hof.R | 189 - sparklyr-1.9.5/sparklyr/R/dplyr_join.R | 33 sparklyr-1.9.5/sparklyr/R/dplyr_spark.R | 101 sparklyr-1.9.5/sparklyr/R/dplyr_spark_data.R | 30 sparklyr-1.9.5/sparklyr/R/dplyr_spark_table.R | 32 sparklyr-1.9.5/sparklyr/R/dplyr_sql.R | 74 sparklyr-1.9.5/sparklyr/R/dplyr_sql_translation.R | 81 sparklyr-1.9.5/sparklyr/R/install_spark.R | 200 + sparklyr-1.9.5/sparklyr/R/install_spark_versions.R | 103 sparklyr-1.9.5/sparklyr/R/install_spark_windows.R | 59 sparklyr-1.9.5/sparklyr/R/java.R | 30 sparklyr-1.9.5/sparklyr/R/jobs_api.R | 11 sparklyr-1.9.5/sparklyr/R/kubernetes_config.R | 116 sparklyr-1.9.5/sparklyr/R/livy_connection.R | 445 ++- sparklyr-1.9.5/sparklyr/R/livy_install.R | 53 sparklyr-1.9.5/sparklyr/R/livy_invoke.R | 15 sparklyr-1.9.5/sparklyr/R/livy_service.R | 24 sparklyr-1.9.5/sparklyr/R/ml_classification_decision_tree_classifier.R | 137 - sparklyr-1.9.5/sparklyr/R/ml_classification_gbt_classifier.R | 252 + sparklyr-1.9.5/sparklyr/R/ml_classification_linear_svc.R | 155 - sparklyr-1.9.5/sparklyr/R/ml_classification_logistic_regression.R | 253 + sparklyr-1.9.5/sparklyr/R/ml_classification_multilayer_perceptron_classifier.R | 182 - sparklyr-1.9.5/sparklyr/R/ml_classification_naive_bayes.R | 105 sparklyr-1.9.5/sparklyr/R/ml_classification_one_vs_rest.R | 68 sparklyr-1.9.5/sparklyr/R/ml_classification_random_forest_classifier.R | 204 + sparklyr-1.9.5/sparklyr/R/ml_clustering_bisecting_kmeans.R | 85 sparklyr-1.9.5/sparklyr/R/ml_clustering_gaussian_mixture.R | 81 sparklyr-1.9.5/sparklyr/R/ml_clustering_kmeans.R | 118 sparklyr-1.9.5/sparklyr/R/ml_clustering_lda.R | 239 + sparklyr-1.9.5/sparklyr/R/ml_clustering_power_iteration.R | 47 sparklyr-1.9.5/sparklyr/R/ml_constructor_utils.R | 16 sparklyr-1.9.5/sparklyr/R/ml_evaluate.R | 11 sparklyr-1.9.5/sparklyr/R/ml_evaluation_clustering.R | 39 sparklyr-1.9.5/sparklyr/R/ml_evaluation_prediction.R | 173 + sparklyr-1.9.5/sparklyr/R/ml_feature_binarizer.R | 42 sparklyr-1.9.5/sparklyr/R/ml_feature_bucketed_random_projection_lsh.R | 63 sparklyr-1.9.5/sparklyr/R/ml_feature_bucketizer.R | 99 sparklyr-1.9.5/sparklyr/R/ml_feature_chisq_selector.R | 136 - sparklyr-1.9.5/sparklyr/R/ml_feature_count_vectorizer.R | 95 sparklyr-1.9.5/sparklyr/R/ml_feature_dct.R | 56 sparklyr-1.9.5/sparklyr/R/ml_feature_dplyr_transformer.R | 37 sparklyr-1.9.5/sparklyr/R/ml_feature_elementwise_product.R | 60 sparklyr-1.9.5/sparklyr/R/ml_feature_feature_hasher.R | 65 sparklyr-1.9.5/sparklyr/R/ml_feature_hashing_tf.R | 51 sparklyr-1.9.5/sparklyr/R/ml_feature_idf.R | 47 sparklyr-1.9.5/sparklyr/R/ml_feature_imputer.R | 69 sparklyr-1.9.5/sparklyr/R/ml_feature_index_to_string.R | 47 sparklyr-1.9.5/sparklyr/R/ml_feature_interaction.R | 48 sparklyr-1.9.5/sparklyr/R/ml_feature_lsh_utils.R | 37 sparklyr-1.9.5/sparklyr/R/ml_feature_max_abs_scaler.R | 44 sparklyr-1.9.5/sparklyr/R/ml_feature_min_max_scaler.R | 55 sparklyr-1.9.5/sparklyr/R/ml_feature_minhash_lsh.R | 55 sparklyr-1.9.5/sparklyr/R/ml_feature_ngram.R | 47 sparklyr-1.9.5/sparklyr/R/ml_feature_normalizer.R | 51 sparklyr-1.9.5/sparklyr/R/ml_feature_one_hot_encoder.R | 70 sparklyr-1.9.5/sparklyr/R/ml_feature_one_hot_encoder_estimator.R | 58 sparklyr-1.9.5/sparklyr/R/ml_feature_pca.R | 63 sparklyr-1.9.5/sparklyr/R/ml_feature_polynomial_expansion.R | 51 sparklyr-1.9.5/sparklyr/R/ml_feature_quantile_discretizer.R | 122 sparklyr-1.9.5/sparklyr/R/ml_feature_r_formula.R | 68 sparklyr-1.9.5/sparklyr/R/ml_feature_regex_tokenizer.R | 67 sparklyr-1.9.5/sparklyr/R/ml_feature_robust_scaler.R | 71 sparklyr-1.9.5/sparklyr/R/ml_feature_sql_transformer.R | 35 sparklyr-1.9.5/sparklyr/R/ml_feature_standard_scaler.R | 55 sparklyr-1.9.5/sparklyr/R/ml_feature_stop_words_remover.R | 87 sparklyr-1.9.5/sparklyr/R/ml_feature_string_indexer.R | 80 sparklyr-1.9.5/sparklyr/R/ml_feature_string_indexer_model.R | 54 sparklyr-1.9.5/sparklyr/R/ml_feature_tokenizer.R | 43 sparklyr-1.9.5/sparklyr/R/ml_feature_vector_assembler.R | 43 sparklyr-1.9.5/sparklyr/R/ml_feature_vector_indexer.R | 66 sparklyr-1.9.5/sparklyr/R/ml_feature_vector_slicer.R | 47 sparklyr-1.9.5/sparklyr/R/ml_feature_word2vec.R | 89 sparklyr-1.9.5/sparklyr/R/ml_fpm_fpgrowth.R | 48 sparklyr-1.9.5/sparklyr/R/ml_fpm_prefixspan.R | 30 sparklyr-1.9.5/sparklyr/R/ml_helpers.R | 26 sparklyr-1.9.5/sparklyr/R/ml_mapping_tables.R | 46 sparklyr-1.9.5/sparklyr/R/ml_metrics.R | 59 sparklyr-1.9.5/sparklyr/R/ml_model_als.R | 7 sparklyr-1.9.5/sparklyr/R/ml_model_bisecting_kmeans.R | 8 sparklyr-1.9.5/sparklyr/R/ml_model_constructors.R | 88 sparklyr-1.9.5/sparklyr/R/ml_model_decision_tree.R | 69 sparklyr-1.9.5/sparklyr/R/ml_model_gaussian_mixture.R | 8 sparklyr-1.9.5/sparklyr/R/ml_model_generalized_linear_regression.R | 59 sparklyr-1.9.5/sparklyr/R/ml_model_gradient_boosted_trees.R | 71 sparklyr-1.9.5/sparklyr/R/ml_model_helpers.R | 46 sparklyr-1.9.5/sparklyr/R/ml_model_isotonic_regression.R | 15 sparklyr-1.9.5/sparklyr/R/ml_model_kmeans.R | 16 sparklyr-1.9.5/sparklyr/R/ml_model_lda.R | 3 sparklyr-1.9.5/sparklyr/R/ml_model_linear_regression.R | 26 sparklyr-1.9.5/sparklyr/R/ml_model_linear_svc.R | 16 sparklyr-1.9.5/sparklyr/R/ml_model_logistic_regression.R | 16 sparklyr-1.9.5/sparklyr/R/ml_model_naive_bayes.R | 16 sparklyr-1.9.5/sparklyr/R/ml_model_one_vs_rest.R | 16 sparklyr-1.9.5/sparklyr/R/ml_model_random_forest.R | 66 sparklyr-1.9.5/sparklyr/R/ml_model_utils.R | 3 sparklyr-1.9.5/sparklyr/R/ml_param_utils.R | 8 sparklyr-1.9.5/sparklyr/R/ml_persistence.R | 51 sparklyr-1.9.5/sparklyr/R/ml_pipeline_utils.R | 106 sparklyr-1.9.5/sparklyr/R/ml_print_utils.R | 8 sparklyr-1.9.5/sparklyr/R/ml_recommendation_als.R | 166 - sparklyr-1.9.5/sparklyr/R/ml_regression_aft_survival_regression.R | 155 - sparklyr-1.9.5/sparklyr/R/ml_regression_decision_tree_regressor.R | 60 sparklyr-1.9.5/sparklyr/R/ml_regression_gbt_regressor.R | 75 sparklyr-1.9.5/sparklyr/R/ml_regression_generalized_linear_regression.R | 117 sparklyr-1.9.5/sparklyr/R/ml_regression_isotonic_regression.R | 36 sparklyr-1.9.5/sparklyr/R/ml_regression_linear_regression.R | 81 sparklyr-1.9.5/sparklyr/R/ml_regression_random_forest_regressor.R | 61 sparklyr-1.9.5/sparklyr/R/ml_stat.R | 68 sparklyr-1.9.5/sparklyr/R/ml_transformation_methods.R | 18 sparklyr-1.9.5/sparklyr/R/ml_transformer_and_estimator.R | 6 sparklyr-1.9.5/sparklyr/R/ml_tuning.R | 107 sparklyr-1.9.5/sparklyr/R/ml_tuning_cross_validator.R | 79 sparklyr-1.9.5/sparklyr/R/ml_tuning_train_validation_split.R | 110 sparklyr-1.9.5/sparklyr/R/ml_utils.R | 98 sparklyr-1.9.5/sparklyr/R/ml_validator_utils.R | 40 sparklyr-1.9.5/sparklyr/R/mutation.R | 16 sparklyr-1.9.5/sparklyr/R/na_actions.R | 20 sparklyr-1.9.5/sparklyr/R/new_model_multilayer_perceptron.R | 16 sparklyr-1.9.5/sparklyr/R/params_validator.R | 24 sparklyr-1.9.5/sparklyr/R/precondition.R | 8 sparklyr-1.9.5/sparklyr/R/project_template.R | 14 sparklyr-1.9.5/sparklyr/R/qubole_connection.R | 4 sparklyr-1.9.5/sparklyr/R/sdf_interface.R | 194 - sparklyr-1.9.5/sparklyr/R/sdf_ml.R | 31 sparklyr-1.9.5/sparklyr/R/sdf_saveload.R | 16 sparklyr-1.9.5/sparklyr/R/sdf_sequence.R | 40 sparklyr-1.9.5/sparklyr/R/sdf_sql.R | 1 sparklyr-1.9.5/sparklyr/R/sdf_stat.R | 193 + sparklyr-1.9.5/sparklyr/R/sdf_unnest_longer.R | 24 sparklyr-1.9.5/sparklyr/R/sdf_unnest_wider.R | 19 sparklyr-1.9.5/sparklyr/R/sdf_utils.R | 3 sparklyr-1.9.5/sparklyr/R/sdf_wrapper.R | 113 sparklyr-1.9.5/sparklyr/R/shell_connection.R | 508 ++- sparklyr-1.9.5/sparklyr/R/spark_apply.R | 218 - sparklyr-1.9.5/sparklyr/R/spark_apply_bundle.R | 24 sparklyr-1.9.5/sparklyr/R/spark_compile.R | 197 - sparklyr-1.9.5/sparklyr/R/spark_connection.R | 10 sparklyr-1.9.5/sparklyr/R/spark_context_config.R | 35 sparklyr-1.9.5/sparklyr/R/spark_dataframe.R | 3 sparklyr-1.9.5/sparklyr/R/spark_extensions.R | 109 sparklyr-1.9.5/sparklyr/R/spark_gateway.R | 46 sparklyr-1.9.5/sparklyr/R/spark_gen_embedded_sources.R | 3 sparklyr-1.9.5/sparklyr/R/spark_globals.R | 4 sparklyr-1.9.5/sparklyr/R/spark_hive.R | 5 sparklyr-1.9.5/sparklyr/R/spark_ide.R | 96 sparklyr-1.9.5/sparklyr/R/spark_invoke.R | 13 sparklyr-1.9.5/sparklyr/R/spark_schema_from_rdd.R | 11 sparklyr-1.9.5/sparklyr/R/spark_sql.R | 32 sparklyr-1.9.5/sparklyr/R/spark_submit.R | 32 sparklyr-1.9.5/sparklyr/R/spark_update_embedded_sources.R | 12 sparklyr-1.9.5/sparklyr/R/spark_utils.R | 19 sparklyr-1.9.5/sparklyr/R/spark_verify_embedded_sources.R | 7 sparklyr-1.9.5/sparklyr/R/spark_version.R | 43 sparklyr-1.9.5/sparklyr/R/sql_utils.R | 2 sparklyr-1.9.5/sparklyr/R/stratified_sample.R | 8 sparklyr-1.9.5/sparklyr/R/stream_data.R | 395 +- sparklyr-1.9.5/sparklyr/R/stream_job.R | 36 sparklyr-1.9.5/sparklyr/R/stream_operations.R | 157 - sparklyr-1.9.5/sparklyr/R/stream_shiny.R | 35 sparklyr-1.9.5/sparklyr/R/stream_view.R | 61 sparklyr-1.9.5/sparklyr/R/synapse_connection.R | 28 sparklyr-1.9.5/sparklyr/R/test_connection.R | 29 sparklyr-1.9.5/sparklyr/R/tidiers_ml_aft_survival_regression.R | 6 sparklyr-1.9.5/sparklyr/R/tidiers_ml_als.R | 1 sparklyr-1.9.5/sparklyr/R/tidiers_ml_isotonic_regression.R | 6 sparklyr-1.9.5/sparklyr/R/tidiers_ml_lda.R | 10 sparklyr-1.9.5/sparklyr/R/tidiers_ml_linear_models.R | 54 sparklyr-1.9.5/sparklyr/R/tidiers_ml_logistic_regression.R | 7 sparklyr-1.9.5/sparklyr/R/tidiers_ml_multilayer_perceptron.R | 13 sparklyr-1.9.5/sparklyr/R/tidiers_ml_naive_bayes.R | 6 sparklyr-1.9.5/sparklyr/R/tidiers_ml_tree_models.R | 67 sparklyr-1.9.5/sparklyr/R/tidiers_ml_unsupervised_models.R | 47 sparklyr-1.9.5/sparklyr/R/tidiers_pca.R | 4 sparklyr-1.9.5/sparklyr/R/tidiers_utils.R | 15 sparklyr-1.9.5/sparklyr/R/tidyr_fill.R | 35 sparklyr-1.9.5/sparklyr/R/tidyr_nest.R | 29 sparklyr-1.9.5/sparklyr/R/tidyr_pivot_longer.R | 163 - sparklyr-1.9.5/sparklyr/R/tidyr_pivot_wider.R | 198 - sparklyr-1.9.5/sparklyr/R/tidyr_separate.R | 16 sparklyr-1.9.5/sparklyr/R/tidyr_unite.R | 23 sparklyr-1.9.5/sparklyr/R/tidyr_unnest.R | 48 sparklyr-1.9.5/sparklyr/R/tidyr_utils.R | 69 sparklyr-1.9.5/sparklyr/R/utils.R | 189 + sparklyr-1.9.5/sparklyr/R/worker_apply.R | 210 + sparklyr-1.9.5/sparklyr/R/worker_connect.R | 54 sparklyr-1.9.5/sparklyr/R/worker_connection.R | 3 sparklyr-1.9.5/sparklyr/R/worker_log.R | 14 sparklyr-1.9.5/sparklyr/R/worker_main.R | 61 sparklyr-1.9.5/sparklyr/R/yarn_cluster.R | 200 + sparklyr-1.9.5/sparklyr/R/yarn_config.R | 29 sparklyr-1.9.5/sparklyr/R/yarn_ui.R | 31 sparklyr-1.9.5/sparklyr/README.md | 14 sparklyr-1.9.5/sparklyr/inst/extdata/versions-next.json | 4 sparklyr-1.9.5/sparklyr/inst/extdata/versions.json | 22 sparklyr-1.9.5/sparklyr/man/collect_from_rds.Rd | 56 sparklyr-1.9.5/sparklyr/man/ft_binarizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_bucketizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_chisq_selector.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_count_vectorizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_dct.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_elementwise_product.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_feature_hasher.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_hashing_tf.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_idf.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_imputer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_index_to_string.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_interaction.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_lsh.Rd | 68 sparklyr-1.9.5/sparklyr/man/ft_max_abs_scaler.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_min_max_scaler.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_ngram.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_normalizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_one_hot_encoder.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_one_hot_encoder_estimator.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_pca.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_polynomial_expansion.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_quantile_discretizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_r_formula.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_regex_tokenizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_robust_scaler.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_standard_scaler.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_stop_words_remover.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_string_indexer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_tokenizer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_vector_assembler.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_vector_indexer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_vector_slicer.Rd | 66 sparklyr-1.9.5/sparklyr/man/ft_word2vec.Rd | 66 sparklyr-1.9.5/sparklyr/man/ml_aft_survival_regression.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_decision_tree.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_generalized_linear_regression.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_gradient_boosted_trees.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_isotonic_regression.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_linear_regression.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_linear_svc.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_logistic_regression.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_multilayer_perceptron_classifier.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_naive_bayes.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_one_vs_rest.Rd | 24 sparklyr-1.9.5/sparklyr/man/ml_random_forest.Rd | 24 sparklyr-1.9.5/sparklyr/man/reexports.Rd | 2 sparklyr-1.9.5/sparklyr/man/sdf_copy_to.Rd | 14 sparklyr-1.9.5/sparklyr/man/sdf_distinct.Rd | 14 sparklyr-1.9.5/sparklyr/man/sdf_random_split.Rd | 14 sparklyr-1.9.5/sparklyr/man/sdf_rbeta.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rbinom.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rcauchy.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rchisq.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_register.Rd | 14 sparklyr-1.9.5/sparklyr/man/sdf_rexp.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rgamma.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rgeom.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rhyper.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rlnorm.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rnorm.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rpois.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rt.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_runif.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_rweibull.Rd | 28 sparklyr-1.9.5/sparklyr/man/sdf_sample.Rd | 14 sparklyr-1.9.5/sparklyr/man/sdf_sort.Rd | 14 sparklyr-1.9.5/sparklyr/man/sdf_weighted_sample.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_adaptive_query_execution.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_advisory_shuffle_partition_size.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_auto_broadcast_join_threshold.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_coalesce_initial_num_partitions.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_coalesce_min_num_partitions.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_coalesce_shuffle_partitions.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_configuration.Rd | 14 sparklyr-1.9.5/sparklyr/man/spark_insert_table.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_load_table.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_avro.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_binary.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_csv.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_delta.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_image.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_jdbc.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_json.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_libsvm.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_orc.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_parquet.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_source.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_table.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_read_text.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_save_table.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_avro.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_csv.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_delta.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_jdbc.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_json.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_orc.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_parquet.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_source.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_table.Rd | 56 sparklyr-1.9.5/sparklyr/man/spark_write_text.Rd | 56 sparklyr-1.9.5/sparklyr/man/sql-transformer.Rd | 66 sparklyr-1.9.5/sparklyr/man/stream_write_csv.Rd | 6 sparklyr-1.9.5/sparklyr/man/stream_write_memory.Rd | 6 sparklyr-1.9.5/sparklyr/man/stream_write_table.Rd | 6 333 files changed, 13266 insertions(+), 7540 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis (Balduzzi et al., 2023) <doi:10.18637/jss.v106.i02> and supporting Schwarzer et al. (2015) <doi:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <doi:10.1002/jrsm.1058>;
- additive network meta-analysis for combinations of treatments (Rücker et al., 2020) <doi:10.1002/bimj.201800167>;
- network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) <doi:10.1002/sim.8158>, or penalised logistic regression (Evrenoglou et al., 2022) <doi:10.1002/sim.9562>;
- rankograms and ranking of treatments by the Surface under the cumulative ranking curve (SUCRA) (Salanti et al., 2013) <doi:10.1016/j.jclinepi.2010.03.016>;
- ranking of treatments using P-scores (frequentist analogue of SUCRAs without resampling) according to [...truncated...]
Author: Gerta Ruecker [aut] ,
Ulrike Krahn [aut],
Jochem Koenig [aut] ,
Orestis Efthimiou [aut] ,
Annabel Davies [aut] ,
Theodoros Papakonstantinou [aut] ,
Theodoros Evrenoglou [ctb] ,
Krzysztof Ciomek [ctb] ,
Nana-adjoa Kwarteng [ctb] ,
Guido Schwarzer [aut, [...truncated...]
Maintainer: Guido Schwarzer <guido.schwarzer@uniklinik-freiburg.de>
Diff between netmeta versions 3.6-0 dated 2026-06-10 and 3.6-1 dated 2026-06-20
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 10 ++++++++++ R/forest.netbind.R | 4 ++++ R/forest.netmeta.R | 17 +++++++++++++++-- R/forest.netsplit.R | 4 ++++ R/forest.subgroup.netmeta.R | 2 ++ inst/doc/netmeta-workflow.pdf |binary inst/doc/netmeta.pdf |binary 9 files changed, 47 insertions(+), 14 deletions(-)
Title: Interactive Maps with 'Mapbox GL JS' and 'MapLibre GL JS'
Description: Provides an interface to the 'Mapbox GL JS' (<https://docs.mapbox.com/mapbox-gl-js/guides>)
and the 'MapLibre GL JS' (<https://maplibre.org/maplibre-gl-js/docs/>) interactive mapping libraries to help users
create custom interactive maps in R. Users can create interactive globe visualizations; layer 'sf' objects to create
filled maps, circle maps, 'heatmaps', and three-dimensional graphics; and customize map styles and views. The package
also includes utilities to use 'Mapbox' and 'MapLibre' maps in 'Shiny' web applications.
Author: Kyle Walker [aut, cre],
Egor Kotov [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between mapgl versions 0.4.6 dated 2026-04-14 and 0.5.0 dated 2026-06-20
DESCRIPTION | 24 LICENSE.note |only MD5 | 143 NAMESPACE | 17 NEWS.md | 30 R/controls.R | 479 ++- R/data.R |only R/draw-sync.R |only R/flowmap.R |only R/h3j-h3t.R | 81 R/image.R | 58 R/layers.R | 321 +- R/legends.R | 616 +++ R/legends_compare.R | 292 + R/mapboxgl.R | 30 R/maplibre.R | 26 R/plugins.R | 301 + R/shiny.R | 56 R/slider.R |only R/sources.R | 70 R/style_helpers.R | 440 ++ R/tooltips_popups.R |only R/utils.R | 57 data |only inst/htmlwidgets/flowmap.css |only inst/htmlwidgets/flowmap.js |only inst/htmlwidgets/lib/bezier-mode |only inst/htmlwidgets/lib/d3 |only inst/htmlwidgets/lib/flowmap-gl |only inst/htmlwidgets/lib/h3j-h3t/h3j_h3t.js | 4 inst/htmlwidgets/lib/legend-interactivity/legend-interactivity.css | 49 inst/htmlwidgets/lib/legend-interactivity/legend-interactivity.js | 391 ++ inst/htmlwidgets/lib/maplibre-gl/maplibre-gl.css | 2 inst/htmlwidgets/lib/maplibre-gl/maplibre-gl.js | 8 inst/htmlwidgets/lib/slider |only inst/htmlwidgets/mapboxgl.js | 1476 ++++++++- inst/htmlwidgets/mapboxgl.yaml | 19 inst/htmlwidgets/mapboxgl_compare.js | 831 ++++- inst/htmlwidgets/mapboxgl_compare.yaml | 13 inst/htmlwidgets/maplibregl.js | 1589 +++++++++- inst/htmlwidgets/maplibregl.yaml | 19 inst/htmlwidgets/maplibregl_compare.js | 900 ++++- inst/htmlwidgets/maplibregl_compare.yaml | 11 inst/htmlwidgets/screenshot.js | 177 + inst/htmlwidgets/styles/slider-control.css |only man/add_bivariate_legend.Rd |only man/add_circle_layer.Rd | 14 man/add_coordinates_control.Rd |only man/add_draw_control.Rd | 61 man/add_fill_extrusion_layer.Rd | 10 man/add_fill_layer.Rd | 8 man/add_flowmap.Rd |only man/add_h3t_source.Rd |only man/add_heatmap_layer.Rd | 2 man/add_image.Rd | 8 man/add_layer.Rd | 10 man/add_line_layer.Rd | 10 man/add_slider_control.Rd |only man/add_symbol_layer.Rd | 8 man/as_time_property.Rd |only man/bivariate_palettes.Rd |only man/bivariate_scale.Rd |only man/bixi_flows.Rd |only man/bixi_locations.Rd |only man/cluster_options.Rd | 5 man/compare.Rd | 54 man/draw_attribute.Rd |only man/flowmap_color_schemes.Rd |only man/get_drawn_features.Rd | 13 man/interpolate_palette.Rd | 11 man/map_legends.Rd | 131 man/mapboxgl_compare_proxy.Rd | 5 man/mapgl-package.Rd | 5 man/maplibre_compare_proxy.Rd | 5 man/set_filter.Rd | 33 man/set_flowmap_filter.Rd |only man/set_flowmap_settings.Rd |only man/set_popup.Rd | 8 man/set_tooltip.Rd | 8 man/slider_style.Rd |only man/tooltip_style.Rd |only man/update_slider_control.Rd |only tests |only 83 files changed, 7905 insertions(+), 1034 deletions(-)
Title: Native R 'torch' Implementation of 'OpenAI' 'Whisper'
Description: Speech-to-text transcription using a native R 'torch' implementation
of 'OpenAI' 'Whisper' model <https://github.com/openai/whisper>. Supports
multiple model sizes from tiny (39M parameters) to large-v3 (1.5B parameters)
with integrated download from 'HuggingFace' <https://huggingface.co/> via the
'hfhub' package. Provides automatic speech recognition with optional language
detection and translation to English. Audio preprocessing, mel spectrogram
computation, and transformer-based encoder-decoder inference are all
implemented in R using the 'torch' package.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph],
OpenAI [cph] )
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between whisper versions 0.3.0 dated 2026-03-13 and 0.4.0 dated 2026-06-19
DESCRIPTION | 16 +- MD5 | 81 ++++++---- NAMESPACE | 2 NEWS.md | 51 ++++++ R/audio.R | 9 - R/config.R | 6 R/decode_jit.R |only R/devices.R | 152 +++++++++++++++++++ R/encoder.R | 9 - R/serve.R |only R/suppress.R |only R/tokenizer.R | 59 +++++-- R/transcribe.R | 299 +++++++++++++++++++++++++++------------ R/zzz.R | 9 + README.md | 62 +++++++- inst/tinytest/test_beam_search.R | 2 inst/tinytest/test_decode_jit.R |only inst/tinytest/test_language.R | 2 inst/tinytest/test_serve.R |only inst/tinytest/test_tokenizer.R | 12 + inst/whisper.service |only man/WHISPER_SAMPLE_RATE.Rd | 3 man/beam_search_decode.Rd | 2 man/compute_word_timestamps.Rd | 4 man/decode_with_fallback.Rd | 10 + man/detect_language.Rd | 4 man/dot-blank_token_ids.Rd |only man/dot-decode_suppress_ids.Rd |only man/dot-model_sizes.Rd |only man/dot-no_speech_prob.Rd |only man/dot-non_speech_token_ids.Rd |only man/dot-suppress_mask.Rd |only man/greedy_decode.Rd | 2 man/greedy_decode_jit.Rd |only man/pipeline_transcribe.Rd | 9 - man/sample_decode.Rd | 2 man/serve.Rd |only man/tokenizer_encode.Rd | 7 man/transcribe.Rd | 16 +- man/transcribe_chunk.Rd | 14 + man/transcribe_long.Rd | 7 man/whisper_attention.Rd | 3 man/whisper_decoder_layer.Rd | 4 man/whisper_device.Rd | 4 man/whisper_dtype.Rd | 5 man/whisper_model.Rd | 3 man/whisper_pipeline.Rd | 4 man/whisper_tokenizer.Rd | 4 man/whisper_tune_gc.Rd |only 49 files changed, 666 insertions(+), 212 deletions(-)
Title: Mediation Analysis Confidence Intervals
Description: Computes confidence intervals for nonlinear functions of model
parameters (e.g., product of k coefficients) in single-level and multilevel
structural equation
models. Methods include the distribution of the product,
Monte Carlo simulation, and bootstrap methods. It also performs the Model-Based
Constrained Optimization (MBCO) procedure for hypothesis testing of indirect
effects.
References:
Tofighi, D., and MacKinnon, D. P. (2011). RMediation: An R package for mediation
analysis confidence intervals. Behavior Research Methods, 43, 692-700.
<doi:10.3758/s13428-011-0076-x>;
Tofighi, D., and Kelley, K. (2020). Improved inference in mediation analysis: Introducing the model-based constrained optimization procedure.
Psychological Methods, 25(4), 496-515. <doi:10.1037/met0000259>;
Tofighi, D. (2020). Bootstrap Model-Based Constrained Optimization Tests of
Indirect Effects. Frontiers in Psychology, 10, 2989.
<doi:10.3389/fpsyg.2019.02989>.
Author: Davood Tofighi [aut, cre]
Maintainer: Davood Tofighi <dtofighi@gmail.com>
Diff between RMediation versions 1.3.0 dated 2025-11-20 and 1.5.0 dated 2026-06-19
RMediation-1.3.0/RMediation/data/memory_exp.RData |only RMediation-1.3.0/RMediation/man/figures/logo-light-large.png |only RMediation-1.3.0/RMediation/man/figures/logo-light-medium.png |only RMediation-1.3.0/RMediation/man/reexports.Rd |only RMediation-1.5.0/RMediation/DESCRIPTION | 23 RMediation-1.5.0/RMediation/MD5 | 120 +++- RMediation-1.5.0/RMediation/NAMESPACE | 24 RMediation-1.5.0/RMediation/NEWS.md | 172 ++++++ RMediation-1.5.0/RMediation/R/00_classes.R |only RMediation-1.5.0/RMediation/R/MBCOResult_methods.R |only RMediation-1.5.0/RMediation/R/ProductNormal_methods.R |only RMediation-1.5.0/RMediation/R/RMediation-package.R | 1 RMediation-1.5.0/RMediation/R/RMediation.R | 10 RMediation-1.5.0/RMediation/R/ci.R | 61 +- RMediation-1.5.0/RMediation/R/ci_medfit.R |only RMediation-1.5.0/RMediation/R/confintMC.R | 14 RMediation-1.5.0/RMediation/R/external_methods.R |only RMediation-1.5.0/RMediation/R/internal_s7_compute.R |only RMediation-1.5.0/RMediation/R/mbco.R | 117 +--- RMediation-1.5.0/RMediation/R/mbco_semi.R | 2 RMediation-1.5.0/RMediation/R/medci.R | 37 - RMediation-1.5.0/RMediation/R/medciMC.R | 2 RMediation-1.5.0/RMediation/R/medci_legacy_backup.R |only RMediation-1.5.0/RMediation/R/medci_prototype.R |only RMediation-1.5.0/RMediation/R/memory_exp.R | 6 RMediation-1.5.0/RMediation/R/pMC.R | 5 RMediation-1.5.0/RMediation/R/pprodnormal.R | 6 RMediation-1.5.0/RMediation/R/pprodnormalMC.R | 2 RMediation-1.5.0/RMediation/R/qMC.R | 5 RMediation-1.5.0/RMediation/R/qprodnormal.R | 6 RMediation-1.5.0/RMediation/R/qprodnormalMC.R | 2 RMediation-1.5.0/RMediation/R/tidy_logLik.R | 2 RMediation-1.5.0/RMediation/R/utils_stats.R |only RMediation-1.5.0/RMediation/R/utils_validation.R |only RMediation-1.5.0/RMediation/R/zzz.R |only RMediation-1.5.0/RMediation/README.md | 253 ++++++++-- RMediation-1.5.0/RMediation/build/partial.rdb |binary RMediation-1.5.0/RMediation/build/vignette.rds |only RMediation-1.5.0/RMediation/data/memory_exp.rda |only RMediation-1.5.0/RMediation/inst/doc |only RMediation-1.5.0/RMediation/man/MBCOResult.Rd |only RMediation-1.5.0/RMediation/man/ProductNormal.Rd |only RMediation-1.5.0/RMediation/man/ProductNormal2.Rd |only RMediation-1.5.0/RMediation/man/ProductNormal_from_lavaan.Rd |only RMediation-1.5.0/RMediation/man/cdf.Rd |only RMediation-1.5.0/RMediation/man/ci.Rd | 122 ---- RMediation-1.5.0/RMediation/man/ci_mediation_data.Rd |only RMediation-1.5.0/RMediation/man/dist_quantile.Rd |only RMediation-1.5.0/RMediation/man/dot-ci_core.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_cdf_dop.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_cdf_mc.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_ci_asymp.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_ci_dop.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_ci_mc.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_quantile_dop.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_quantile_dop_internal.Rd |only RMediation-1.5.0/RMediation/man/dot-compute_quantile_mc.Rd |only RMediation-1.5.0/RMediation/man/dot-format_medci_result.Rd |only RMediation-1.5.0/RMediation/man/figures/logo.png |binary RMediation-1.5.0/RMediation/man/is_valid_for_computation.Rd |only RMediation-1.5.0/RMediation/man/mbco.Rd | 32 - RMediation-1.5.0/RMediation/man/medci.Rd | 74 ++ RMediation-1.5.0/RMediation/man/medci_prototype.Rd |only RMediation-1.5.0/RMediation/man/memory_exp.Rd | 6 RMediation-1.5.0/RMediation/man/pMC.Rd | 5 RMediation-1.5.0/RMediation/man/pprodnormal.Rd | 6 RMediation-1.5.0/RMediation/man/qMC.Rd | 5 RMediation-1.5.0/RMediation/man/qprodnormal.Rd | 6 RMediation-1.5.0/RMediation/man/tidy.Rd |only RMediation-1.5.0/RMediation/man/utils_validation.Rd |only RMediation-1.5.0/RMediation/man/validate_ProductNormal.Rd |only RMediation-1.5.0/RMediation/tests/testthat/test-ci-medfit-covariance.R |only RMediation-1.5.0/RMediation/tests/testthat/test-legacy-compat.R |only RMediation-1.5.0/RMediation/tests/testthat/test-mbco-legacy.R |only RMediation-1.5.0/RMediation/tests/testthat/test-s7-display.R |only RMediation-1.5.0/RMediation/tests/testthat/test-s7-integration.R |only RMediation-1.5.0/RMediation/tests/testthat/test-s7-mbco.R |only RMediation-1.5.0/RMediation/tests/testthat/test-s7-productnormal.R |only RMediation-1.5.0/RMediation/tests/testthat/test-s7-prototype.R |only RMediation-1.5.0/RMediation/tests/testthat/test-serial-medfit-integration.R |only RMediation-1.5.0/RMediation/vignettes |only 81 files changed, 710 insertions(+), 416 deletions(-)
Title: Automatic Linear and Logistic Regression and Survival Analysis
Description: Make summary tables for descriptive statistics and select explanatory variables
automatically in various regression models. Support linear models, generalized linear
models and cox-proportional hazard models. Generate publication-ready tables summarizing
result of regression analysis and plots. The tables and plots can be exported in "HTML",
"pdf('LaTex')", "docx('MS Word')" and "pptx('MS Powerpoint')" documents.
Author: Keon-Woong Moon [aut, cre]
Maintainer: Keon-Woong Moon <cardiomoon@gmail.com>
Diff between autoReg versions 0.3.3 dated 2023-11-14 and 0.3.5 dated 2026-06-19
DESCRIPTION | 8 +-- MD5 | 44 ++++++++++----------- NAMESPACE | 1 NEWS | 14 ++++++ R/adjustedPlot.R | 8 ++- R/autoReg.R | 14 ++++-- R/df2flextable.R | 4 - R/fit2model.R | 6 +- R/modelPlot.R | 4 - R/residualPlot.R | 2 R/showEffect.R | 2 build/vignette.rds |binary inst/doc/Automatic_Regression_Modeling.R | 4 - inst/doc/Automatic_Regression_Modeling.html | 49 +++++++++++++++++------ inst/doc/Bootstrap_Prediction.html | 23 +++++++++-- inst/doc/Getting_started.R | 14 +++--- inst/doc/Getting_started.html | 58 +++++++++++++++++----------- inst/doc/Statiastical_test_in_gaze.html | 33 +++++++++++---- inst/doc/Survival.R | 4 - inst/doc/Survival.html | 49 ++++++++++++++++------- man/reexports.Rd | 2 man/residualPlot.Rd | 2 man/showEffect.Rd | 2 23 files changed, 232 insertions(+), 115 deletions(-)
Title: Synthetic Control Method with Spillover Effects
Description: A general-purpose implementation of synthetic control methods
that accounts for potential spillover effects between units. Based on
the methodology of Cao and Dowd (2019).
Author: Jianfei Cao [aut],
Zhanchao Fu [cre]
Maintainer: Zhanchao Fu <fuzhanchao2001@gmail.com>
Diff between scmSpillover versions 0.1.1 dated 2026-01-09 and 0.1.2 dated 2026-06-19
scmSpillover-0.1.1/scmSpillover/INDEX |only scmSpillover-0.1.1/scmSpillover/R/zzz.R |only scmSpillover-0.1.1/scmSpillover/inst/extdata/cigs.rda |only scmSpillover-0.1.1/scmSpillover/tests |only scmSpillover-0.1.2/scmSpillover/DESCRIPTION | 19 - scmSpillover-0.1.2/scmSpillover/LICENSE | 2 scmSpillover-0.1.2/scmSpillover/MD5 | 49 ++-- scmSpillover-0.1.2/scmSpillover/NAMESPACE | 2 scmSpillover-0.1.2/scmSpillover/NEWS.md | 63 ----- scmSpillover-0.1.2/scmSpillover/R/data.R |only scmSpillover-0.1.2/scmSpillover/R/data_generator.R | 79 +++---- scmSpillover-0.1.2/scmSpillover/R/method.R | 121 +++++------ scmSpillover-0.1.2/scmSpillover/R/plotting.R | 61 +---- scmSpillover-0.1.2/scmSpillover/R/scmSpillover-package.R |only scmSpillover-0.1.2/scmSpillover/R/scm_analysis.R | 9 scmSpillover-0.1.2/scmSpillover/R/scm_core.R | 42 ++- scmSpillover-0.1.2/scmSpillover/README.md | 30 -- scmSpillover-0.1.2/scmSpillover/data |only scmSpillover-0.1.2/scmSpillover/inst/extdata/cigs.xls |only scmSpillover-0.1.2/scmSpillover/man/california_cigarette.Rd |only scmSpillover-0.1.2/scmSpillover/man/generate_test_data.Rd | 14 - scmSpillover-0.1.2/scmSpillover/man/plot.scm_spillover.Rd | 11 - scmSpillover-0.1.2/scmSpillover/man/plot_all.Rd | 11 - scmSpillover-0.1.2/scmSpillover/man/plot_effects.Rd | 10 scmSpillover-0.1.2/scmSpillover/man/print.scm_spillover.Rd | 6 scmSpillover-0.1.2/scmSpillover/man/run_scm_spillover.Rd | 10 scmSpillover-0.1.2/scmSpillover/man/save_all_plots.Rd | 13 - scmSpillover-0.1.2/scmSpillover/man/scm.Rd | 10 scmSpillover-0.1.2/scmSpillover/man/scmSpillover-package.Rd |only scmSpillover-0.1.2/scmSpillover/man/summary.scm_spillover.Rd | 6 30 files changed, 242 insertions(+), 326 deletions(-)
Title: Run Any CLI Tool on a 'Conda' Environment
Description: Simplifies the execution of command line interface (CLI)
tools within isolated and reproducible environments. It enables users
to effortlessly manage 'Conda' environments, execute command line
tools, handle dependencies, and ensure reproducibility in their data
analysis workflows.
Author: Lucio Queiroz [aut, cre, cph] ,
Claudio Zanettini [aut, ctb]
Maintainer: Lucio Queiroz <luciorqueiroz@gmail.com>
Diff between condathis versions 0.1.3 dated 2025-11-08 and 0.1.4 dated 2026-06-19
DESCRIPTION | 21 MD5 | 164 +++--- NEWS.md | 49 ++ R/check_connection.R | 13 R/check_micromamba_version.R | 34 + R/clean_cache.R | 38 + R/conda_envvars.R |only R/create_base_env.R | 8 R/create_env.R | 166 +++--- R/define_platform.R | 50 +- R/download_micromamba_file.R |only R/env_exists.R | 15 R/format_channels_args.R | 14 R/get_best_micromamba_path.R | 95 +++ R/get_condathis_path.R | 16 R/get_env_dir.R | 12 R/get_install_dir.R | 23 R/get_micromamba_version.R | 13 R/get_sys_arch.R | 11 R/has_system_tar.R |only R/install_micromamba.R | 413 ++++++++++++----- R/install_packages.R | 55 +- R/is_micromamba_available.R | 30 - R/is_micromamba_version_available.R | 10 R/list_envs.R | 18 R/list_packages.R | 58 +- R/micromamba_bin_path.R | 20 R/micromamba_download_urls.R |only R/micromamba_user_installed.R | 11 R/native_cmd.R | 64 +- R/packages_search_native.R | 52 +- R/parse_match_spec.R |only R/parse_output.R | 28 - R/parse_quiet_flag.R | 9 R/parse_strategy_channel_priority.R |only R/parse_strategy_verbose.R | 28 - R/remove_env.R | 17 R/rethrow_error_cmd.R | 11 R/rethrow_error_run.R | 17 R/run.R | 112 +--- R/run_bin.R | 69 +- R/run_internal_native.R | 22 R/satisfies_dependencies.R |only R/symlink_micromamba_bin.R | 42 + R/version_spec_contains.R |only R/with_sandbox_dir.R | 31 - README.md | 4 build/vignette.rds |binary inst/doc/condathis.R | 8 inst/doc/condathis.html | 13 inst/doc/condathis.qmd | 30 - inst/extdata/polyglot.cmd |only man/clean_cache.Rd | 23 man/condathis-package.Rd | 3 man/create_env.Rd | 110 +--- man/env_exists.Rd | 36 - man/figures/logo.svg |only man/get_env_dir.Rd | 13 man/get_install_dir.Rd | 20 man/get_sys_arch.Rd | 11 man/install_micromamba.Rd | 47 - man/install_packages.Rd | 63 +- man/list_envs.Rd | 18 man/list_packages.Rd | 59 -- man/micromamba_bin_path.Rd | 18 man/parse_output.Rd | 20 man/remove_env.Rd | 38 - man/run.Rd | 110 +--- man/run_bin.Rd | 92 +-- man/with_sandbox_dir.Rd | 28 - tests/testthat/libmamba_wrappers.R |only tests/testthat/test-check_micromamba_version.R |only tests/testthat/test-clean_cache.R | 54 +- tests/testthat/test-conda_envvars.R |only tests/testthat/test-create_env.R | 77 +-- tests/testthat/test-create_nested_env.R | 14 tests/testthat/test-format_channels_args.R | 4 tests/testthat/test-get_best_micromamba_path.R |only tests/testthat/test-get_install_dir.R | 16 tests/testthat/test-get_sys_arch.R | 12 tests/testthat/test-install_micromamba.R | 199 ++++++-- tests/testthat/test-is_micromamba_available_for_arch.R | 56 +- tests/testthat/test-list_packages.R | 13 tests/testthat/test-parse_match_spec.R |only tests/testthat/test-parse_strategy_channel_priority.R |only tests/testthat/test-rethrow_error.R | 5 tests/testthat/test-run.R | 14 tests/testthat/test-run_output_file.R | 7 tests/testthat/test-run_verbose_levels.R | 4 tests/testthat/test-satisfy_dependencies.R |only tests/testthat/test-version_spec_contains.R |only vignettes/condathis.qmd | 30 - 92 files changed, 1819 insertions(+), 1309 deletions(-)
Title: NASA 'EarthData' Access Utilities
Description: Providing easy, portable access to NASA 'EarthData' products
through the use of bearer tokens. Much of NASA's public data catalogs hosted
and maintained by its 12 Distributed Active Archive Centers ('DAACs') are
now made available on the Amazon Web Services 'S3' storage. However,
accessing this data through the standard 'S3' API is restricted to only to
compute resources running inside 'us-west-2' Data Center in Portland, Oregon,
which allows NASA to avoid being charged data egress rates. This package
provides public access to the data from any networked device by using the
'EarthData' login application programming interface (API),
<https://www.earthdata.nasa.gov/data/earthdata-login>,
providing convenient authentication and access to cloud-hosted NASA 'EarthData'
products. This makes access to a wide range of earth observation data from
any location straight forward and compatible with R packages that are
widely used with cloud native earth observation data (such as 'terra',
's [...truncated...]
Author: Carl Boettiger [aut, cre, cph] ,
Luis Lopez [aut] ,
Yuvi Panda [aut],
Bri Lind [aut] ,
Andy Teucher [ctb] ,
Openscapes [fnd]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between earthdatalogin versions 0.0.4 dated 2026-06-12 and 0.0.5 dated 2026-06-19
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 16 ++++++++++++++++ R/edl_download.R | 16 +++++++++++----- R/edl_netrc.R | 31 ++++++++++++++++++++++++------- R/edl_search.R | 22 +++++++++++++++------- R/stac-collections_fetch.R | 22 +++++++++++++++------- man/collections_fetch.Rd | 4 ++++ tests/testthat/test-edl_netrc.R | 34 ++++++++++++++++++++++++++++++++++ tests/testthat/test-edl_search.R | 22 ++++++++++++++++++++++ 10 files changed, 153 insertions(+), 38 deletions(-)
More information about earthdatalogin at CRAN
Permanent link
Title: 'R' Grammar for 'Tree-Sitter'
Description: Provides bindings to an 'R' grammar for 'Tree-sitter', to be
used alongside the 'treesitter' package. 'Tree-sitter' builds concrete
syntax trees for source files of any language, and can efficiently
update those syntax trees as the source file is edited.
Author: Davis Vaughan [aut, cre],
Posit Software, PBC [cph, fnd],
Tree-sitter authors [cph]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between treesitter.r versions 1.2.0 dated 2025-06-05 and 1.3.0 dated 2026-06-19
DESCRIPTION | 8 MD5 | 35 NEWS.md | 6 src/parser.c |150253 ++++++++++++++++----------------- src/scanner.c | 647 tests/testthat/_snaps/calls.md | 47 tests/testthat/_snaps/control-flow.md | 8 tests/testthat/_snaps/extract.md | 8 tests/testthat/_snaps/functions.md | 325 tests/testthat/_snaps/literals.md | 376 tests/testthat/_snaps/miscellaneous.md | 8 tests/testthat/_snaps/strings.md | 498 tests/testthat/_snaps/unclosed.md | 8 tests/testthat/references/calls.R | 6 tests/testthat/references/functions.R | 8 tests/testthat/references/literals.R | 52 tests/testthat/references/strings.R | 21 tests/testthat/test-comments.R |only tests/testthat/test-stack-crash.R | 6 19 files changed, 77552 insertions(+), 74768 deletions(-)
Title: 'OpenAI' Compatible Speech-to-Text API Client
Description: A minimal-dependency R client for 'OpenAI'-compatible speech-to-text
APIs (see <https://platform.openai.com/docs/api-reference/audio>) with
optional local fallbacks. Supports 'OpenAI', local servers, and the
'whisper' package for local transcription.
Author: Troy Hernandez [aut, cre] ,
Cornball AI [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between stt.api versions 0.2.1 dated 2026-04-01 and 0.3.0 dated 2026-06-19
DESCRIPTION | 6 +- MD5 | 16 +++---- NEWS.md | 18 ++++++++ R/internal_api.R | 30 +++++++++++++ R/internal_backend.R | 91 ++++++++++++++++++++++++++---------------- R/stt.R | 63 +++++++++++++++++++++++------ README.md | 37 ++++++++++++++--- inst/tinytest/test_internal.R | 28 ++++++++++++ man/stt.Rd | 37 +++++++++++++---- 9 files changed, 255 insertions(+), 71 deletions(-)
Title: Create and Install Custom 'RStudio' Themes
Description: Create, convert and install custom 'RStudio' editor themes
from 'Visual Studio Code', 'Positron' and 'TextMate' theme files.
Convert themes between 'TextMate', 'Visual Studio Code' and 'Positron'
formats and install bundled ports of popular themes for use in
'RStudio'.
Author: Diego Hernangomez [aut, cre, cph] ,
Garrick Aden-Buie [cph] function)
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between rstudiothemes versions 1.1.1 dated 2026-05-11 and 1.1.2 dated 2026-06-19
DESCRIPTION | 18 LICENSE | 4 MD5 | 101 +- NEWS.md | 52 - R/convert-tm-to-vs.R | 334 +++---- R/convert-to-rs.R | 144 +-- R/convert-vs-to-tm.R | 244 ++--- R/generate-uuid.R | 45 R/on-rstudio.R | 16 R/read-tm-theme.R | 101 -- R/read-vs-theme.R | 114 +- R/rstudiothemes-actions.R | 174 +-- R/utils.R | 81 + README.md | 120 +- inst/CITATION | 48 - inst/WORDLIST | 2 inst/doc/rstudiothemes.R | 6 inst/doc/rstudiothemes.html | 50 - inst/doc/rstudiothemes.qmd | 60 - inst/ext/Skeletor_Syntax.tmTheme | 1064 +++++++++++------------ inst/ext/skeletor-syntax-color-theme.json | 1126 ++++++++++++------------- inst/ext/test-hc-dark.tmTheme |only inst/ext/test-hc-light.tmTheme |only inst/ext/test-simple-color-theme.json | 2 inst/ext/test.tmTheme | 1002 +++++++++++----------- inst/rsthemes/VSCode_Dark.rstheme | 2 inst/rsthemes/VSCode_Light.rstheme | 2 inst/schemaorg.json | 8 man/chunks/themes.Rmd | 30 man/convert_tm_to_vs_theme.Rd | 121 +- man/convert_to_rstudio_theme.Rd | 213 ++-- man/convert_vs_to_tm_theme.Rd | 124 +- man/generate_uuid.Rd | 103 +- man/on_rstudio.Rd | 48 - man/read_tm_theme.Rd | 76 - man/read_vs_theme.Rd | 72 - man/roxygen |only man/rstudiothemes-actions.Rd | 229 ++--- man/rstudiothemes-package.Rd | 72 - tests/testthat/_snaps/convert-tm-to-vs.md | 23 tests/testthat/_snaps/convert-vs-to-tm.md | 14 tests/testthat/_snaps/on-rstudio.md | 6 tests/testthat/_snaps/read-tm-theme.md | 12 tests/testthat/_snaps/read-vs-theme.md | 10 tests/testthat/_snaps/rstudiothemes-actions.md | 27 tests/testthat/_snaps/utils.md | 2 tests/testthat/test-convert-tm-to-vs.R | 49 + tests/testthat/test-convert-vs-to-tm.R | 35 tests/testthat/test-read-tm-theme.R | 43 tests/testthat/test-read-vs-theme.R | 20 tests/testthat/test-rstudiothemes-actions.R | 42 tests/testthat/test-utils.R | 66 + vignettes/rstudiothemes.qmd | 60 - 53 files changed, 3329 insertions(+), 3088 deletions(-)
Title: Integrative Chromatin Accessibility and RNA Framework for Gene
Regulatory Networks
Description: Provides a reproducible framework for constructing and comparing
gene regulatory networks by integrating chromatin accessibility footprint
scores with matched RNA expression data. It implements context-specific
enhancer-gene linking, transcription factor focused network analysis,
differential network analysis, and regulatory topic modeling workflows for
systematic exploration of gene regulation across conditions. Methodological
background is described in Bentsen and others (2020)
<doi:10.1038/s41467-020-18035-1>, Blei, Ng and Jordan (2003)
<https://www.jmlr.org/papers/v3/blei03a.html>, and Chen, Li, Zhu and Chen
(2015) <doi:10.48550/arXiv.1510.08628>.
Author: Yaoxiang Li [aut, cre],
Chunling Yi [aut]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
Diff between craftgrn versions 0.1.6 dated 2026-06-18 and 0.1.7 dated 2026-06-19
DESCRIPTION | 13 +- MD5 | 18 +-- NEWS.md | 7 + R/utils_step3_topic_benchmark.R | 135 ++++++++++++++++++++++++-- R/utils_step3_topic_models.R | 95 ++++++++++++++++-- inst/WORDLIST | 3 man/run_topic_modeling.Rd | 8 + tests/testthat/test-config.R | 9 - tests/testthat/test-module3-topic-benchmark.R | 67 ++++++++++++ tests/testthat/test-module3-topic-models.R | 115 ++++++++++++++++++++++ 10 files changed, 434 insertions(+), 36 deletions(-)
Title: Create Blogs and Websites with R Markdown
Description: Write blog posts and web pages in R Markdown. This package
supports the static site generator 'Hugo' (<https://gohugo.io>) best,
and it also supports 'Jekyll' (<https://jekyllrb.com>) and 'Hexo'
(<https://hexo.io>).
Author: Yihui Xie [aut, cre] ,
Christophe Dervieux [aut] ,
Alison Presmanes Hill [aut] ,
Amber Thomas [ctb],
Beilei Bian [ctb],
Brandon Greenwell [ctb],
Brian Barkley [ctb],
Deependra Dhakal [ctb],
Eric Nantz [ctb],
Forest Fang [ctb],
Garrick Aden-Buie [ctb] [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between blogdown versions 1.23 dated 2026-01-17 and 1.24 dated 2026-06-19
blogdown-1.23/blogdown/tests/test-ci.R |only blogdown-1.23/blogdown/tests/test-cran.R |only blogdown-1.24/blogdown/DESCRIPTION | 8 ++--- blogdown-1.24/blogdown/MD5 | 31 ++++++++++----------- blogdown-1.24/blogdown/R/format.R | 4 +- blogdown-1.24/blogdown/R/hugo.R | 12 +++----- blogdown-1.24/blogdown/R/install.R | 4 +- blogdown-1.24/blogdown/R/package.R | 6 +--- blogdown-1.24/blogdown/R/render.R | 2 - blogdown-1.24/blogdown/R/utils.R | 9 ++++++ blogdown-1.24/blogdown/inst/CITATION | 2 - blogdown-1.24/blogdown/inst/resources/Rprofile | 2 - blogdown-1.24/blogdown/man/blogdown.Rd | 2 - blogdown-1.24/blogdown/man/build_site.Rd | 2 - blogdown-1.24/blogdown/man/html_page.Rd | 4 +- blogdown-1.24/blogdown/man/install_hugo.Rd | 2 - blogdown-1.24/blogdown/tests/test-all.R |only blogdown-1.24/blogdown/tests/test-ci/test-themes.R | 1 18 files changed, 47 insertions(+), 44 deletions(-)
Title: Data Thinning of Species Occurrences in Environmental Space
Description: A suite of tools to mitigate sampling bias in species occurrence
records by thinning data in the environmental space (E-space). This process
can improve the accuracy and precision of species distribution models (SDM,
also known as ecological niche models, ENM). The package offers a
data-driven protocol to determine thinning parameters using kernel-density
bandwidth selection. Two thinning methods are provided (stochastic and
deterministic) to reduce over-sampled environmental conditions and down-weight
outlier observations. The name 'bean' reflects the core principle of the
method: each 'pod' (a grid cell in E-space) is allowed to contain only a
limited number of 'beans' (occurrence points). See Silverman (1986,
ISBN:978-0-412-24620-3) and Rousseeuw and Leroy (2003,
ISBN:978-0-471-48855-2) for the underlying statistical methods.
Author: Paanwaris Paansri [cre, aut] ,
Luis E. Escobar [aut, ctb]
Maintainer: Paanwaris Paansri <paanwaris@vt.edu>
Diff between bean versions 0.2.1 dated 2026-06-08 and 0.2.2 dated 2026-06-19
DESCRIPTION | 9 +- MD5 | 36 +++++----- NEWS.md | 16 ++++ R/fit_ellipsoid.R | 7 - README.md | 16 ++-- inst/doc/bean-overview.R | 4 - inst/doc/bean-overview.Rmd | 4 - inst/doc/data-preparation.R | 4 - inst/doc/data-preparation.Rmd | 4 - inst/doc/environmental-thinning.R | 4 - inst/doc/environmental-thinning.Rmd | 4 - inst/doc/niche-modeling.R | 101 ++++++++++++++++++---------- inst/doc/niche-modeling.Rmd | 113 ++++++++++++++++++++++---------- inst/doc/niche-modeling.html | 123 +++++++++++++++++++++++++---------- man/fit_ellipsoid.Rd | 7 - vignettes/bean-overview.Rmd | 4 - vignettes/data-preparation.Rmd | 4 - vignettes/environmental-thinning.Rmd | 4 - vignettes/niche-modeling.Rmd | 113 ++++++++++++++++++++++---------- 19 files changed, 384 insertions(+), 193 deletions(-)
Title: Meta Clustering with Similarity Network Fusion
Description: Framework to facilitate patient subtyping with similarity network fusion and meta clustering. The similarity network fusion (SNF) algorithm was introduced by Wang et al. (2014) in <doi:10.1038/nmeth.2810>. SNF is a data integration approach that can transform high-dimensional and diverse data types into a single similarity network suitable for clustering with minimal loss of information from each initial data source. The meta clustering approach was introduced by Caruana et al. (2006) in <doi:10.1109/ICDM.2006.103>. Meta clustering involves generating a wide range of cluster solutions by adjusting clustering hyperparameters, then clustering the solutions themselves into a manageable number of qualitatively similar solutions, and finally characterizing representative solutions to find ones that are best for the user's specific context. This package provides a framework to easily transform multi-modal data into a wide range of similarity network fusion-derived cluster solutio [...truncated...]
Author: Prashanth S Velayudhan [aut, cre],
Xiaoqiao Xu [aut],
Prajkta Kallurkar [aut],
Ana Patricia Balbon [aut],
Maria T Secara [aut],
Adam Taback [aut],
Denise Sabac [aut],
Nicholas Chan [aut],
Shihao Ma [aut],
Bo Wang [aut],
Daniel Felsky [aut],
Stephanie [...truncated...]
Maintainer: Prashanth S Velayudhan <psvelayu@gmail.com>
Diff between metasnf versions 2.1.2 dated 2025-04-28 and 2.3.0 dated 2026-06-19
DESCRIPTION | 10 MD5 | 79 +++---- NEWS.md | 18 + R/dist_fns_list.R | 5 R/feature_plots.R | 3 R/quality_measures.R | 346 +++++++++++++++++++++----------- R/settings_df.R | 17 - R/snf_config.R | 15 + README.md | 5 build/partial.rdb |binary build/vignette.rds |binary inst/doc/a_complete_example.Rmd | 13 - inst/doc/a_complete_example.html | 24 -- inst/doc/a_simple_example.html | 4 inst/doc/alluvial_plots.html | 8 inst/doc/clustering_algorithms.html | 8 inst/doc/confounders.html | 16 - inst/doc/correlation_plots.html | 4 inst/doc/data_list.html | 4 inst/doc/distance_metrics.html | 6 inst/doc/feature_plots.html | 12 - inst/doc/feature_weights.html | 4 inst/doc/getting_started.html | 4 inst/doc/imputations.html | 4 inst/doc/manhattan_plots.html | 4 inst/doc/nmi_scores.html | 4 inst/doc/parallel_processing.html | 4 inst/doc/quality_measures.Rmd | 4 inst/doc/quality_measures.html | 8 inst/doc/similarity_matrix_heatmap.html | 4 inst/doc/snf_config.html | 8 inst/doc/stability_measures.html | 4 man/add_settings_df_rows.Rd | 7 man/db_manual.Rd |only man/dist_fns_list.Rd | 5 man/dunn_manual.Rd |only man/quality_measures.Rd | 19 - man/settings_df.Rd | 7 man/sim_to_dist.Rd |only man/snf_config.Rd | 7 vignettes/a_complete_example.Rmd | 13 - vignettes/quality_measures.Rmd | 4 42 files changed, 416 insertions(+), 295 deletions(-)
Title: Cross-Design & Cross-Format Network Meta-Analysis and Regression
Description: Network meta-analysis and meta-regression (allows
including up to three covariates) for individual participant data,
aggregate data, and mixtures of both formats using the three-level
hierarchical model. Each format can come from randomized controlled
trials or non-randomized studies or mixtures of both. Estimates are
generated in a Bayesian framework using JAGS. The implemented models
are described by Hamza et al. 2023 <DOI:10.1002/jrsm.1619>.
Author: Tasnim Hamza [aut] ,
Guido Schwarzer [aut, cre] ,
Georgia Salanti [aut]
Maintainer: Guido Schwarzer <guido.schwarzer@uniklinik-freiburg.de>
Diff between crossnma versions 1.3.0 dated 2024-11-28 and 1.3.1 dated 2026-06-19
DESCRIPTION | 21 +++++++++++---------- MD5 | 28 ++++++++++++++-------------- NEWS.md | 12 ++++++++++++ R/crossnma-package.R | 16 +++++----------- R/crossnma.R | 4 ++-- R/crossnma.code.R | 2 +- R/crossnma.model.R | 15 ++++++++------- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 2 +- inst/doc/crossnma.Rmd | 2 +- inst/doc/crossnma.pdf |binary man/crossnma-package.Rd | 4 ++-- vignettes/crossnma.Rmd | 2 +- vignettes/references.bib | 8 +++++--- 15 files changed, 63 insertions(+), 53 deletions(-)
Title: High-Performance Wavelet Lifting Transforms
Description: Performs Wavelet Lifting Transforms focusing on signal denoising
and functional data analysis (FDA). Implements a hybrid architecture with
a zero-allocation 'C++' core for high-performance processing. Features include
unified offline (batch) denoising, causal (real-time) filtering using a
ring buffer engine, and adaptive recursive thresholding.
Author: Moises da Silva [aut, cre]
Maintainer: Moises da Silva <moisesdff8@gmail.com>
Diff between rLifting versions 0.9.0 dated 2026-02-20 and 1.0.0 dated 2026-06-19
rLifting-0.9.0/rLifting/data/benchmark_causal.rda |only rLifting-0.9.0/rLifting/data/benchmark_offline.rda |only rLifting-0.9.0/rLifting/data/leakage_results.rda |only rLifting-0.9.0/rLifting/inst/doc/benchmark_causal.R |only rLifting-0.9.0/rLifting/inst/doc/benchmark_causal.Rmd |only rLifting-0.9.0/rLifting/inst/doc/benchmark_causal.html |only rLifting-0.9.0/rLifting/inst/doc/benchmark_offline.R |only rLifting-0.9.0/rLifting/inst/doc/benchmark_offline.Rmd |only rLifting-0.9.0/rLifting/inst/doc/benchmark_offline.html |only rLifting-0.9.0/rLifting/inst/doc/extensions.R |only rLifting-0.9.0/rLifting/inst/doc/extensions.Rmd |only rLifting-0.9.0/rLifting/inst/doc/extensions.html |only rLifting-0.9.0/rLifting/inst/doc/introduction.R |only rLifting-0.9.0/rLifting/inst/doc/introduction.Rmd |only rLifting-0.9.0/rLifting/inst/doc/introduction.html |only rLifting-0.9.0/rLifting/inst/doc/realtime.R |only rLifting-0.9.0/rLifting/inst/doc/realtime.Rmd |only rLifting-0.9.0/rLifting/inst/doc/realtime.html |only rLifting-0.9.0/rLifting/man/benchmark_causal.Rd |only rLifting-0.9.0/rLifting/man/benchmark_offline.Rd |only rLifting-0.9.0/rLifting/man/leakage_results.Rd |only rLifting-0.9.0/rLifting/vignettes/benchmark_causal.Rmd |only rLifting-0.9.0/rLifting/vignettes/benchmark_offline.Rmd |only rLifting-0.9.0/rLifting/vignettes/extensions.Rmd |only rLifting-0.9.0/rLifting/vignettes/introduction.Rmd |only rLifting-0.9.0/rLifting/vignettes/realtime.Rmd |only rLifting-1.0.0/rLifting/DESCRIPTION | 12 rLifting-1.0.0/rLifting/MD5 | 184 +- rLifting-1.0.0/rLifting/NAMESPACE | 2 rLifting-1.0.0/rLifting/NEWS.md | 60 rLifting-1.0.0/rLifting/R/RcppExports.R | 102 - rLifting-1.0.0/rLifting/R/adaptative_threshold.R | 137 + rLifting-1.0.0/rLifting/R/data.R | 305 +++- rLifting-1.0.0/rLifting/R/denoising_offline.R | 150 +- rLifting-1.0.0/rLifting/R/diagnostics.R | 733 +++++----- rLifting-1.0.0/rLifting/R/ilwt.R | 96 - rLifting-1.0.0/rLifting/R/imports.R | 28 rLifting-1.0.0/rLifting/R/lifting_scheme.R | 436 +++-- rLifting-1.0.0/rLifting/R/lwt.R | 254 +-- rLifting-1.0.0/rLifting/R/realtime_denoising.R | 419 +++-- rLifting-1.0.0/rLifting/R/thresholding.R | 151 +- rLifting-1.0.0/rLifting/R/tune_alpha_beta.R |only rLifting-1.0.0/rLifting/R/utils-thresholding.R |only rLifting-1.0.0/rLifting/build/partial.rdb |only rLifting-1.0.0/rLifting/build/vignette.rds |binary rLifting-1.0.0/rLifting/data/benchmark_adlift.rda |only rLifting-1.0.0/rLifting/data/benchmark_adlift_irregular.rda |only rLifting-1.0.0/rLifting/data/benchmark_nlt.rda |only rLifting-1.0.0/rLifting/data/benchmark_nlt_irregular.rda |only rLifting-1.0.0/rLifting/data/benchmark_rlifting.rda |only rLifting-1.0.0/rLifting/data/benchmark_rlifting_irregular.rda |only rLifting-1.0.0/rLifting/data/benchmark_wavethresh.rda |only rLifting-1.0.0/rLifting/data/doppler_example.rda |binary rLifting-1.0.0/rLifting/inst/doc/v01-introduction.R |only rLifting-1.0.0/rLifting/inst/doc/v01-introduction.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v01-introduction.html |only rLifting-1.0.0/rLifting/inst/doc/v02-thresholding-and-tuning.R |only rLifting-1.0.0/rLifting/inst/doc/v02-thresholding-and-tuning.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v02-thresholding-and-tuning.html |only rLifting-1.0.0/rLifting/inst/doc/v03-causal-stream.R |only rLifting-1.0.0/rLifting/inst/doc/v03-causal-stream.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v03-causal-stream.html |only rLifting-1.0.0/rLifting/inst/doc/v04-boundary-modes.R |only rLifting-1.0.0/rLifting/inst/doc/v04-boundary-modes.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v04-boundary-modes.html |only rLifting-1.0.0/rLifting/inst/doc/v05-irregular-grids.R |only rLifting-1.0.0/rLifting/inst/doc/v05-irregular-grids.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v05-irregular-grids.html |only rLifting-1.0.0/rLifting/inst/doc/v06-extensions.R |only rLifting-1.0.0/rLifting/inst/doc/v06-extensions.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v06-extensions.html |only rLifting-1.0.0/rLifting/inst/doc/v07-benchmarks.R |only rLifting-1.0.0/rLifting/inst/doc/v07-benchmarks.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v07-benchmarks.html |only rLifting-1.0.0/rLifting/inst/doc/v08-real-world.R |only rLifting-1.0.0/rLifting/inst/doc/v08-real-world.Rmd |only rLifting-1.0.0/rLifting/inst/doc/v08-real-world.html |only rLifting-1.0.0/rLifting/inst/include/rLifting/WaveletEngine.h | 272 ++- rLifting-1.0.0/rLifting/inst/include/rLifting/utils.h | 192 ++ rLifting-1.0.0/rLifting/inst/notes |only rLifting-1.0.0/rLifting/man/benchmark_adlift.Rd |only rLifting-1.0.0/rLifting/man/benchmark_adlift_irregular.Rd |only rLifting-1.0.0/rLifting/man/benchmark_nlt.Rd |only rLifting-1.0.0/rLifting/man/benchmark_nlt_irregular.Rd |only rLifting-1.0.0/rLifting/man/benchmark_rlifting.Rd |only rLifting-1.0.0/rLifting/man/benchmark_rlifting_irregular.Rd |only rLifting-1.0.0/rLifting/man/benchmark_wavethresh.Rd |only rLifting-1.0.0/rLifting/man/compute_adaptive_threshold.Rd | 28 rLifting-1.0.0/rLifting/man/denoise_signal_causal.Rd | 42 rLifting-1.0.0/rLifting/man/denoise_signal_offline.Rd | 46 rLifting-1.0.0/rLifting/man/diagnose_wavelet.Rd | 8 rLifting-1.0.0/rLifting/man/doppler_example.Rd | 8 rLifting-1.0.0/rLifting/man/dot-check_irregular_scheme.Rd |only rLifting-1.0.0/rLifting/man/ilwt.Rd | 7 rLifting-1.0.0/rLifting/man/lift_step.Rd | 33 rLifting-1.0.0/rLifting/man/lwt.Rd | 25 rLifting-1.0.0/rLifting/man/new_wavelet_stream.Rd | 49 rLifting-1.0.0/rLifting/man/threshold.Rd | 8 rLifting-1.0.0/rLifting/man/threshold_scad.Rd |only rLifting-1.0.0/rLifting/man/threshold_semisoft.Rd | 5 rLifting-1.0.0/rLifting/man/tune_alpha_beta.Rd |only rLifting-1.0.0/rLifting/src/RcppExports.cpp | 100 - rLifting-1.0.0/rLifting/src/adaptative.cpp | 40 rLifting-1.0.0/rLifting/src/fast_stream.cpp | 33 rLifting-1.0.0/rLifting/src/ilwt.cpp | 103 - rLifting-1.0.0/rLifting/src/lwt.cpp | 104 - rLifting-1.0.0/rLifting/src/offline.cpp | 192 +- rLifting-1.0.0/rLifting/src/thresholding.cpp | 39 rLifting-1.0.0/rLifting/src/utils.cpp | 16 rLifting-1.0.0/rLifting/tests/testthat.R | 24 rLifting-1.0.0/rLifting/tests/testthat/Rplots.pdf |only rLifting-1.0.0/rLifting/tests/testthat/test-api-refactor.R |only rLifting-1.0.0/rLifting/tests/testthat/test-boundary-locallinear.R |only rLifting-1.0.0/rLifting/tests/testthat/test-boundary-onesided.R |only rLifting-1.0.0/rLifting/tests/testthat/test-diagnostics.R | 117 - rLifting-1.0.0/rLifting/tests/testthat/test-external-cpp.R | 80 - rLifting-1.0.0/rLifting/tests/testthat/test-irregular-grid.R |only rLifting-1.0.0/rLifting/tests/testthat/test-mad-consistency.R |only rLifting-1.0.0/rLifting/tests/testthat/test-scad-a-propagation.R |only rLifting-1.0.0/rLifting/tests/testthat/test-shrinkage-scad.R |only rLifting-1.0.0/rLifting/tests/testthat/test-sureshrink.R |only rLifting-1.0.0/rLifting/tests/testthat/test-test-core-wavelets.R | 109 - rLifting-1.0.0/rLifting/tests/testthat/test-test-custom.R | 70 rLifting-1.0.0/rLifting/tests/testthat/test-test-denoising.R | 75 - rLifting-1.0.0/rLifting/tests/testthat/test-test-robustness.R | 42 rLifting-1.0.0/rLifting/tests/testthat/test-thresholding-wrapper.R | 42 rLifting-1.0.0/rLifting/tests/testthat/test-tune-alpha-beta.R |only rLifting-1.0.0/rLifting/tests/testthat/test-update-freq-validation.R |only rLifting-1.0.0/rLifting/vignettes/v01-introduction.Rmd |only rLifting-1.0.0/rLifting/vignettes/v02-thresholding-and-tuning.Rmd |only rLifting-1.0.0/rLifting/vignettes/v03-causal-stream.Rmd |only rLifting-1.0.0/rLifting/vignettes/v04-boundary-modes.Rmd |only rLifting-1.0.0/rLifting/vignettes/v05-irregular-grids.Rmd |only rLifting-1.0.0/rLifting/vignettes/v06-extensions.Rmd |only rLifting-1.0.0/rLifting/vignettes/v07-benchmarks.Rmd |only rLifting-1.0.0/rLifting/vignettes/v08-real-world.Rmd |only 136 files changed, 3088 insertions(+), 1890 deletions(-)
Title: Bayesian Distributed Lag Non-Linear Models (B-DLNM)
Description: A Bayesian framework for estimating distributed lag linear and non-linear models. Model fitting is implemented using Integrated Nested Laplace Approximation (R package 'INLA'), together with prediction and visualization of exposure-lag-response associations. Additional functions allow estimation of optimal exposure values (e.g., minimum mortality temperature) and computation of attributable fractions and numbers. Models with 'crossbasis' or 'onebasis' terms are supported (R package 'dlnm').
Author: Pau Satorra [aut, cre] ,
Marcos Quijal-Zamorano [aut],
Joan Ballester [aut],
Cristian Tebe [ctb],
Miguel A. Martinez-Beneito [aut, ths],
Marc Mari-Dell'Olmo [aut, ths]
Maintainer: Pau Satorra <psatorra@igtp.cat>
Diff between bdlnm versions 0.1.0 dated 2026-03-18 and 0.1.1 dated 2026-06-19
DESCRIPTION | 10 MD5 | 49 - NEWS.md | 8 R/attributable.R | 1246 +++++++++++++++++++-------------------- R/bcrosspred.R | 1116 +++++++++++++++++----------------- R/bdlnm.R | 705 +++++++++++----------- R/optimal_exposure.R | 518 ++++++++-------- R/plot.bcrosspred.R | 1098 +++++++++++++++++----------------- R/plot.optimal_exposure.R | 282 ++++---- R/utils.R | 476 +++++++------- README.md | 6 build/vignette.rds |binary inst/doc/bdlnm.R | 112 ++- inst/doc/bdlnm.Rmd | 112 ++- inst/doc/bdlnm.html | 421 +++++++------ man/attributable.Rd | 8 man/bcrosspred.Rd | 4 man/bdlnm.Rd | 20 man/figures |only man/optimal_exposure.Rd | 4 man/plot.bcrosspred.Rd | 4 man/plot.optimal_exposure.Rd | 4 tests/testthat/helper.R | 2 tests/testthat/test-bcrosspred.R | 59 + tests/testthat/test-bdlnm.R | 2 vignettes/bdlnm.Rmd | 112 ++- 26 files changed, 3363 insertions(+), 3015 deletions(-)
Title: Mapping the Prevalence of Binary Indicators using Survey Data in
Small Areas
Description: Provides a pipeline to perform small area estimation and prevalence mapping of binary indicators using health and demographic survey data, described in Dong et al. (2026) <doi:10.1093/jssam/smaf048>, Wakefield et al. (2025) <doi:10.48550/arXiv.2110.09576> and Wakefield et al. (2020) <doi:10.1111/insr.12400>.
Author: Qianyu Dong [cre, aut],
Zehang R Li [aut],
Yunhan Wu [aut],
Jieyi Xu [aut],
Andrea Boskovic [aut],
Jon Wakefield [aut]
Maintainer: Qianyu Dong <qdong14@ucsc.edu>
Diff between surveyPrev versions 1.0.0 dated 2024-04-10 and 2.0.0 dated 2026-06-19
surveyPrev-1.0.0/surveyPrev/R/indicators.R |only surveyPrev-1.0.0/surveyPrev/R/surveyPrevIndicators.R |only surveyPrev-1.0.0/surveyPrev/data/surveyPrevIndicators.rda |only surveyPrev-1.0.0/surveyPrev/man/NMR.Rd |only surveyPrev-1.0.0/surveyPrev/man/ch_allvac_either.Rd |only surveyPrev-1.0.0/surveyPrev/man/ch_diar_ors_rhf.Rd |only surveyPrev-1.0.0/surveyPrev/man/ch_meas_either.Rd |only surveyPrev-1.0.0/surveyPrev/man/ch_novac_either.Rd |only surveyPrev-1.0.0/surveyPrev/man/ch_pent1_either.Rd |only surveyPrev-1.0.0/surveyPrev/man/ch_pent3_either.Rd |only surveyPrev-1.0.0/surveyPrev/man/fp_cruse_mod.Rd |only surveyPrev-1.0.0/surveyPrev/man/fp_unmet_tot.Rd |only surveyPrev-1.0.0/surveyPrev/man/hv_hiv_pos.Rd |only surveyPrev-1.0.0/surveyPrev/man/ml_hhaccess.Rd |only surveyPrev-1.0.0/surveyPrev/man/nt_ch_any_anem.Rd |only surveyPrev-1.0.0/surveyPrev/man/nt_ch_stunt.Rd |only surveyPrev-1.0.0/surveyPrev/man/nt_ch_wast.Rd |only surveyPrev-1.0.0/surveyPrev/man/nt_ebf.Rd |only surveyPrev-1.0.0/surveyPrev/man/nt_wm_any_anem.Rd |only surveyPrev-1.0.0/surveyPrev/man/nt_wm_thin.Rd |only surveyPrev-1.0.0/surveyPrev/man/ph_sani_basic.Rd |only surveyPrev-1.0.0/surveyPrev/man/ph_sani_improve.Rd |only surveyPrev-1.0.0/surveyPrev/man/rh_anc_4vs.Rd |only surveyPrev-1.0.0/surveyPrev/man/rh_del_pvskill.Rd |only surveyPrev-1.0.0/surveyPrev/man/surveyPrevIndicators.Rd |only surveyPrev-1.0.0/surveyPrev/man/watersource_adj.Rd |only surveyPrev-2.0.0/surveyPrev/DESCRIPTION | 22 surveyPrev-2.0.0/surveyPrev/MD5 | 508 +++- surveyPrev-2.0.0/surveyPrev/NAMESPACE | 274 ++ surveyPrev-2.0.0/surveyPrev/NEWS.md | 41 surveyPrev-2.0.0/surveyPrev/R/AH_TOBC_W_OTH.R |only surveyPrev-2.0.0/surveyPrev/R/AH_TOBU_M_ASM.R |only surveyPrev-2.0.0/surveyPrev/R/AH_TOBU_M_SNN.R |only surveyPrev-2.0.0/surveyPrev/R/AH_TOBU_W_SNM.R |only surveyPrev-2.0.0/surveyPrev/R/AH_TOBU_W_SNN.R |only surveyPrev-2.0.0/surveyPrev/R/AN_ANEM_W_ANY.R |only surveyPrev-2.0.0/surveyPrev/R/AN_NUTS_W_OVW.R |only surveyPrev-2.0.0/surveyPrev/R/AN_NUTS_W_THN.R |only surveyPrev-2.0.0/surveyPrev/R/CH_ARIS_C_ADV.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_ABI.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_ADV.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_AMO.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_NOT.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_ORS.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_ORT.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_OSI.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIAT_C_RHF.R |only surveyPrev-2.0.0/surveyPrev/R/CH_DIFP_C_FAL.R |only surveyPrev-2.0.0/surveyPrev/R/CH_FEVR_C_FEV.R |only surveyPrev-2.0.0/surveyPrev/R/CH_FEVT_C_ADV.R |only surveyPrev-2.0.0/surveyPrev/R/CH_SZWT_C_L25.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_BAS.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_BCG.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_DP1.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_DP3.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_MSL.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_NON.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_PN3.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACC_C_RT1.R |only surveyPrev-2.0.0/surveyPrev/R/CH_VACS_C_PN3.R |only surveyPrev-2.0.0/surveyPrev/R/CM_ECMR_C_IMF.R |only surveyPrev-2.0.0/surveyPrev/R/CM_ECMR_C_IMR.R |only surveyPrev-2.0.0/surveyPrev/R/CM_ECMR_C_NNF.R |only surveyPrev-2.0.0/surveyPrev/R/CM_ECMR_C_NNR.R |only surveyPrev-2.0.0/surveyPrev/R/CM_ECMR_C_U5F.R |only surveyPrev-2.0.0/surveyPrev/R/CM_ECMR_C_U5M.R |only surveyPrev-2.0.0/surveyPrev/R/CN_ANMC_C_ANY.R |only surveyPrev-2.0.0/surveyPrev/R/CN_BRFI_C_EVR.R |only surveyPrev-2.0.0/surveyPrev/R/CN_BRFS_C_EXB.R |only surveyPrev-2.0.0/surveyPrev/R/CN_IYCF_C_4FA.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_HA2.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_HA3.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_WA2.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_WA3.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_WAP.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_WH2.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_WH3.R |only surveyPrev-2.0.0/surveyPrev/R/CN_NUTS_C_WHP.R |only surveyPrev-2.0.0/surveyPrev/R/CO_INUS_W_EVU.R |only surveyPrev-2.0.0/surveyPrev/R/CO_INUS_W_U12.R |only surveyPrev-2.0.0/surveyPrev/R/CO_MOBB_W_BNK.R |only surveyPrev-2.0.0/surveyPrev/R/CO_MOBB_W_MBF.R |only surveyPrev-2.0.0/surveyPrev/R/CO_MOBB_W_MOB.R |only surveyPrev-2.0.0/surveyPrev/R/CP_BREG_C_CRT.R |only surveyPrev-2.0.0/surveyPrev/R/CP_BREG_C_NCT.R |only surveyPrev-2.0.0/surveyPrev/R/CP_BREG_C_REG.R |only surveyPrev-2.0.0/surveyPrev/R/DV_AFSV_W_A10.R |only surveyPrev-2.0.0/surveyPrev/R/DV_AFSV_W_A12.R |only surveyPrev-2.0.0/surveyPrev/R/DV_EXPV_W_12M.R |only surveyPrev-2.0.0/surveyPrev/R/DV_EXSV_W_12M.R |only surveyPrev-2.0.0/surveyPrev/R/DV_EXSV_W_EVR.R |only surveyPrev-2.0.0/surveyPrev/R/DV_PCPV_W_CBF.R |only surveyPrev-2.0.0/surveyPrev/R/DV_PCPV_W_CHD.R |only surveyPrev-2.0.0/surveyPrev/R/DV_PCPV_W_EMP.R |only surveyPrev-2.0.0/surveyPrev/R/DV_PCPV_W_FLW.R |only surveyPrev-2.0.0/surveyPrev/R/DV_PCPV_W_OLW.R |only surveyPrev-2.0.0/surveyPrev/R/DV_STPS_W_BFR.R |only surveyPrev-2.0.0/surveyPrev/R/DV_VPRG_W_VPG.R |only surveyPrev-2.0.0/surveyPrev/R/ED_EDUC_W_SEH.R |only surveyPrev-2.0.0/surveyPrev/R/ED_LITR_W_LIT.R |only surveyPrev-2.0.0/surveyPrev/R/ED_MDIA_W_3MD.R |only surveyPrev-2.0.0/surveyPrev/R/ED_MDIA_W_N3M.R |only surveyPrev-2.0.0/surveyPrev/R/ED_MDIA_W_NWS.R |only surveyPrev-2.0.0/surveyPrev/R/ED_MDIA_W_RDO.R |only surveyPrev-2.0.0/surveyPrev/R/ED_MDIA_W_TLV.R |only surveyPrev-2.0.0/surveyPrev/R/EM_EMPM_W_EMP.R |only surveyPrev-2.0.0/surveyPrev/R/FG_KFCC_W_HFC.R |only surveyPrev-2.0.0/surveyPrev/R/FG_PFCC_W_WCC.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_ANY.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_EMC.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_FCN.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_FST.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_IMP.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_INJ.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_IUD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_MCN.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_MOD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_MST.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_PIL.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_STD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_TRA.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSA_W_WTH.R |only surveyPrev-2.0.0/surveyPrev/R/FP_CUSM_W_MOD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_EFPM_M_NWS.R |only surveyPrev-2.0.0/surveyPrev/R/FP_EFPM_M_TLV.R |only surveyPrev-2.0.0/surveyPrev/R/FP_EFPM_W_NWS.R |only surveyPrev-2.0.0/surveyPrev/R/FP_EFPM_W_RDO.R |only surveyPrev-2.0.0/surveyPrev/R/FP_EFPM_W_TLV.R |only surveyPrev-2.0.0/surveyPrev/R/FP_EVUM_W_MOD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_ANY.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_EMC.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_FCN.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_FST.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_IMP.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_INJ.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_IUD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_MST.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_OMD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_PIL.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_STD.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_TRA.R |only surveyPrev-2.0.0/surveyPrev/R/FP_KMTA_W_WTH.R |only surveyPrev-2.0.0/surveyPrev/R/FP_NADA_W_UNT.R |only surveyPrev-2.0.0/surveyPrev/R/FP_NADM_W_PDM.R |only surveyPrev-2.0.0/surveyPrev/R/FP_NADM_W_UNT.R |only surveyPrev-2.0.0/surveyPrev/R/FP_NDYA_W_PDM.R |only surveyPrev-2.0.0/surveyPrev/R/HA_AFSY_M_A15.R |only surveyPrev-2.0.0/surveyPrev/R/HA_AFSY_M_A18.R |only surveyPrev-2.0.0/surveyPrev/R/HA_AFSY_W_A18.R |only surveyPrev-2.0.0/surveyPrev/R/HA_ANSS_M_CND.R |only surveyPrev-2.0.0/surveyPrev/R/HA_ANSS_W_CND.R |only surveyPrev-2.0.0/surveyPrev/R/HA_ANSS_W_RSX.R |only surveyPrev-2.0.0/surveyPrev/R/HA_CATH_W_ATN.R |only surveyPrev-2.0.0/surveyPrev/R/HA_CATH_W_NRS.R |only surveyPrev-2.0.0/surveyPrev/R/HA_HIVP_B_HIV.R |only surveyPrev-2.0.0/surveyPrev/R/HA_HRSX_W_CND.R |only surveyPrev-2.0.0/surveyPrev/R/HA_HVST_M_HRD.R |only surveyPrev-2.0.0/surveyPrev/R/HA_HVST_M_USD.R |only surveyPrev-2.0.0/surveyPrev/R/HA_HVTY_M_TRR.R |only surveyPrev-2.0.0/surveyPrev/R/HA_HVTY_W_TRR.R |only surveyPrev-2.0.0/surveyPrev/R/HA_KAID_W_HRD.R |only surveyPrev-2.0.0/surveyPrev/R/HA_STIS_M_DIS.R |only surveyPrev-2.0.0/surveyPrev/R/HA_STIS_M_SOR.R |only surveyPrev-2.0.0/surveyPrev/R/HA_STIS_W_STI.R |only surveyPrev-2.0.0/surveyPrev/R/HC_AGEG_P_ADL.R |only surveyPrev-2.0.0/surveyPrev/R/HC_ELEC_H_ELC.R |only surveyPrev-2.0.0/surveyPrev/R/HC_FLRM_H_CER.R |only surveyPrev-2.0.0/surveyPrev/R/HC_HEFF_H_RDO.R |only surveyPrev-2.0.0/surveyPrev/R/HC_WIXQ_P_12Q.R |only surveyPrev-2.0.0/surveyPrev/R/HC_WIXQ_P_2ND.R |only surveyPrev-2.0.0/surveyPrev/R/HC_WIXQ_P_LOW.R |only surveyPrev-2.0.0/surveyPrev/R/MA_CWIV_W_CWV.R |only surveyPrev-2.0.0/surveyPrev/R/MA_MBAG_W_B15.R |only surveyPrev-2.0.0/surveyPrev/R/MA_MBAG_W_B18.R |only surveyPrev-2.0.0/surveyPrev/R/MA_MBAY_W_B15.R |only surveyPrev-2.0.0/surveyPrev/R/MA_MBAY_W_B18.R |only surveyPrev-2.0.0/surveyPrev/R/MA_MSTA_W_NMA.R |only surveyPrev-2.0.0/surveyPrev/R/ML_NETC_C_ITN.R |only surveyPrev-2.0.0/surveyPrev/R/ML_NETP_H_IT2.R |only surveyPrev-2.0.0/surveyPrev/R/ML_NETU_P_ITN.R |only surveyPrev-2.0.0/surveyPrev/R/ML_PMAL_C_RDT.R |only surveyPrev-2.0.0/surveyPrev/R/PR_DESL_W_WNM.R |only surveyPrev-2.0.0/surveyPrev/R/RH_ANCN_W_N01.R |only surveyPrev-2.0.0/surveyPrev/R/RH_ANCN_W_N4F.R |only surveyPrev-2.0.0/surveyPrev/R/RH_ANCN_W_N4P.R |only surveyPrev-2.0.0/surveyPrev/R/RH_ANCN_W_NON.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELA_C_SKF.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELA_C_SKP.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_DHF.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_DHT.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_HOM.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_HOT.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_PRT.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_PRV.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_PUB.R |only surveyPrev-2.0.0/surveyPrev/R/RH_DELP_C_PUT.R |only surveyPrev-2.0.0/surveyPrev/R/RH_PAHC_W_DIS.R |only surveyPrev-2.0.0/surveyPrev/R/RH_PAHC_W_MON.R |only surveyPrev-2.0.0/surveyPrev/R/RH_PAHC_W_PRM.R |only surveyPrev-2.0.0/surveyPrev/R/RH_PCCT_C_DY2.R |only surveyPrev-2.0.0/surveyPrev/R/RH_PCMT_W_DY2.R |only surveyPrev-2.0.0/surveyPrev/R/RH_PCMT_W_NON.R |only surveyPrev-2.0.0/surveyPrev/R/U5MR_helpers.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_M_ARG.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_M_BFD.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_M_OUT.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_M_REF.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_W_ARG.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_W_BFD.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_W_NEG.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_W_OUT.R |only surveyPrev-2.0.0/surveyPrev/R/WE_AWBT_W_REF.R |only surveyPrev-2.0.0/surveyPrev/R/WS_SRCE_H_USG.R |only surveyPrev-2.0.0/surveyPrev/R/WS_SRCE_P_BAS.R |only surveyPrev-2.0.0/surveyPrev/R/WS_TLET_H_IMP.R |only surveyPrev-2.0.0/surveyPrev/R/WS_TLET_P_BAS.R |only surveyPrev-2.0.0/surveyPrev/R/WS_WTRT_P_BLC.R |only surveyPrev-2.0.0/surveyPrev/R/WS_WTRT_P_BOL.R |only surveyPrev-2.0.0/surveyPrev/R/WS_WTRT_P_SOL.R |only surveyPrev-2.0.0/surveyPrev/R/WS_WTRT_P_STN.R |only surveyPrev-2.0.0/surveyPrev/R/addNewIndicator.R |only surveyPrev-2.0.0/surveyPrev/R/admininfo.R | 25 surveyPrev-2.0.0/surveyPrev/R/aggPopulation.R | 40 surveyPrev-2.0.0/surveyPrev/R/check_global.R | 387 ++- surveyPrev-2.0.0/surveyPrev/R/clusterModel.R | 1206 +++++++++- surveyPrev-2.0.0/surveyPrev/R/clusterinfo.R | 653 +++++ surveyPrev-2.0.0/surveyPrev/R/datainfo.R |only surveyPrev-2.0.0/surveyPrev/R/directEST.R | 485 +++- surveyPrev-2.0.0/surveyPrev/R/directEST_varfix.R |only surveyPrev-2.0.0/surveyPrev/R/exceedPlot.R |only surveyPrev-2.0.0/surveyPrev/R/fct_visualization.R |only surveyPrev-2.0.0/surveyPrev/R/getCovariate.R |only surveyPrev-2.0.0/surveyPrev/R/getDHSdata.R | 89 surveyPrev-2.0.0/surveyPrev/R/getDHSgeo.R | 3 surveyPrev-2.0.0/surveyPrev/R/getDHSindicator.R | 679 ++--- surveyPrev-2.0.0/surveyPrev/R/getUR.R | 120 surveyPrev-2.0.0/surveyPrev/R/get_api_table.R | 55 surveyPrev-2.0.0/surveyPrev/R/hatching.R |only surveyPrev-2.0.0/surveyPrev/R/helperGeoBoundaries.R |only surveyPrev-2.0.0/surveyPrev/R/indicatorList.R |only surveyPrev-2.0.0/surveyPrev/R/intervalPlot.R | 154 + surveyPrev-2.0.0/surveyPrev/R/match_all_result.R |only surveyPrev-2.0.0/surveyPrev/R/rankPlot.R |only surveyPrev-2.0.0/surveyPrev/R/scatterPlot.R | 7 surveyPrev-2.0.0/surveyPrev/R/smthdirectEST.R | 356 ++ surveyPrev-2.0.0/surveyPrev/README.md | 29 surveyPrev-2.0.0/surveyPrev/build/vignette.rds |binary surveyPrev-2.0.0/surveyPrev/data/ZambiaAdm1.rda |binary surveyPrev-2.0.0/surveyPrev/data/ZambiaAdm2.rda |binary surveyPrev-2.0.0/surveyPrev/data/indicatorList.rda |only surveyPrev-2.0.0/surveyPrev/data/match_all_result.rda |only surveyPrev-2.0.0/surveyPrev/inst/doc/vignette-data-preparation.html | 406 +-- surveyPrev-2.0.0/surveyPrev/inst/doc/vignette-main.html | 598 ++-- surveyPrev-2.0.0/surveyPrev/man/AH_TOBC_W_OTH.Rd |only surveyPrev-2.0.0/surveyPrev/man/AH_TOBU_M_ASM.Rd |only surveyPrev-2.0.0/surveyPrev/man/AH_TOBU_M_SNN.Rd |only surveyPrev-2.0.0/surveyPrev/man/AH_TOBU_W_SNM.Rd |only surveyPrev-2.0.0/surveyPrev/man/AH_TOBU_W_SNN.Rd |only surveyPrev-2.0.0/surveyPrev/man/AN_ANEM_W_ANY.Rd |only surveyPrev-2.0.0/surveyPrev/man/AN_NUTS_W_OVW.Rd |only surveyPrev-2.0.0/surveyPrev/man/AN_NUTS_W_THN.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_ARIS_C_ADV.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_ABI.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_ADV.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_AMO.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_NOT.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_ORS.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_ORT.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_OSI.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIAT_C_RHF.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_DIFP_C_FAL.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_FEVR_C_FEV.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_FEVT_C_ADV.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_SZWT_C_L25.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_BAS.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_BCG.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_DP1.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_DP3.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_MSL.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_NON.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_PN3.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACC_C_RT1.Rd |only surveyPrev-2.0.0/surveyPrev/man/CH_VACS_C_PN3.Rd |only surveyPrev-2.0.0/surveyPrev/man/CM_ECMR_C_IMF.Rd |only surveyPrev-2.0.0/surveyPrev/man/CM_ECMR_C_IMR.Rd |only surveyPrev-2.0.0/surveyPrev/man/CM_ECMR_C_NNF.Rd |only surveyPrev-2.0.0/surveyPrev/man/CM_ECMR_C_NNR.Rd |only surveyPrev-2.0.0/surveyPrev/man/CM_ECMR_C_U5F.Rd |only surveyPrev-2.0.0/surveyPrev/man/CM_ECMR_C_U5M.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_ANMC_C_ANY.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_BRFI_C_EVR.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_BRFS_C_EXB.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_IYCF_C_4FA.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_HA2.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_HA3.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_WA2.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_WA3.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_WAP.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_WH2.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_WH3.Rd |only surveyPrev-2.0.0/surveyPrev/man/CN_NUTS_C_WHP.Rd |only surveyPrev-2.0.0/surveyPrev/man/CO_INUS_W_EVU.Rd |only surveyPrev-2.0.0/surveyPrev/man/CO_INUS_W_U12.Rd |only surveyPrev-2.0.0/surveyPrev/man/CO_MOBB_W_BNK.Rd |only surveyPrev-2.0.0/surveyPrev/man/CO_MOBB_W_MBF.Rd |only surveyPrev-2.0.0/surveyPrev/man/CO_MOBB_W_MOB.Rd |only surveyPrev-2.0.0/surveyPrev/man/CP_BREG_C_CRT.Rd |only surveyPrev-2.0.0/surveyPrev/man/CP_BREG_C_NCT.Rd |only surveyPrev-2.0.0/surveyPrev/man/CP_BREG_C_REG.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_AFSV_W_A10.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_AFSV_W_A12.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_EXPV_W_12M.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_EXSV_W_12M.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_EXSV_W_EVR.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_PCPV_W_CBF.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_PCPV_W_CHD.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_PCPV_W_EMP.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_PCPV_W_FLW.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_PCPV_W_OLW.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_STPS_W_BFR.Rd |only surveyPrev-2.0.0/surveyPrev/man/DV_VPRG_W_VPG.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_EDUC_W_SEH.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_LITR_W_LIT.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_MDIA_W_3MD.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_MDIA_W_N3M.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_MDIA_W_NWS.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_MDIA_W_RDO.Rd |only surveyPrev-2.0.0/surveyPrev/man/ED_MDIA_W_TLV.Rd |only surveyPrev-2.0.0/surveyPrev/man/EM_EMPM_W_EMP.Rd |only surveyPrev-2.0.0/surveyPrev/man/FG_KFCC_W_HFC.Rd |only surveyPrev-2.0.0/surveyPrev/man/FG_PFCC_W_WCC.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_ANY.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_EMC.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_FCN.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_FST.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_IMP.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_INJ.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_IUD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_MCN.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_MOD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_MST.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_PIL.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_STD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_TRA.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSA_W_WTH.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_CUSM_W_MOD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_EFPM_M_NWS.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_EFPM_M_TLV.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_EFPM_W_NWS.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_EFPM_W_RDO.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_EFPM_W_TLV.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_EVUM_W_MOD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_ANY.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_EMC.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_FCN.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_FST.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_IMP.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_INJ.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_IUD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_MST.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_OMD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_PIL.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_STD.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_TRA.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_KMTA_W_WTH.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_NADA_W_UNT.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_NADM_W_PDM.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_NADM_W_UNT.Rd |only surveyPrev-2.0.0/surveyPrev/man/FP_NDYA_W_PDM.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_AFSY_M_A15.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_AFSY_M_A18.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_AFSY_W_A18.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_ANSS_M_CND.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_ANSS_W_CND.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_ANSS_W_RSX.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_CATH_W_ATN.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_CATH_W_NRS.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_HIVP_B_HIV.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_HRSX_W_CND.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_HVST_M_HRD.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_HVST_M_USD.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_HVTY_M_TRR.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_HVTY_W_TRR.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_KAID_W_HRD.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_STIS_M_DIS.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_STIS_M_SOR.Rd |only surveyPrev-2.0.0/surveyPrev/man/HA_STIS_W_STI.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_AGEG_P_ADL.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_ELEC_H_ELC.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_FLRM_H_CER.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_HEFF_H_RDO.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_WIXQ_P_12Q.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_WIXQ_P_2ND.Rd |only surveyPrev-2.0.0/surveyPrev/man/HC_WIXQ_P_LOW.Rd |only surveyPrev-2.0.0/surveyPrev/man/MA_CWIV_W_CWV.Rd |only surveyPrev-2.0.0/surveyPrev/man/MA_MBAG_W_B15.Rd |only surveyPrev-2.0.0/surveyPrev/man/MA_MBAG_W_B18.Rd |only surveyPrev-2.0.0/surveyPrev/man/MA_MBAY_W_B15.Rd |only surveyPrev-2.0.0/surveyPrev/man/MA_MBAY_W_B18.Rd |only surveyPrev-2.0.0/surveyPrev/man/MA_MSTA_W_NMA.Rd |only surveyPrev-2.0.0/surveyPrev/man/ML_NETC_C_ITN.Rd |only surveyPrev-2.0.0/surveyPrev/man/ML_NETP_H_IT2.Rd |only surveyPrev-2.0.0/surveyPrev/man/ML_NETU_P_ITN.Rd |only surveyPrev-2.0.0/surveyPrev/man/ML_PMAL_C_RDT.Rd |only surveyPrev-2.0.0/surveyPrev/man/PR_DESL_W_WNM.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_ANCN_W_N01.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_ANCN_W_N4F.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_ANCN_W_N4P.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_ANCN_W_NON.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELA_C_SKF.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELA_C_SKP.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_DHF.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_DHT.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_HOM.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_HOT.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_PRT.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_PRV.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_PUB.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_DELP_C_PUT.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_PAHC_W_DIS.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_PAHC_W_MON.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_PAHC_W_PRM.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_PCCT_C_DY2.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_PCMT_W_DY2.Rd |only surveyPrev-2.0.0/surveyPrev/man/RH_PCMT_W_NON.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_M_ARG.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_M_BFD.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_M_OUT.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_M_REF.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_W_ARG.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_W_BFD.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_W_NEG.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_W_OUT.Rd |only surveyPrev-2.0.0/surveyPrev/man/WE_AWBT_W_REF.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_SRCE_H_USG.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_SRCE_P_BAS.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_TLET_H_IMP.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_TLET_P_BAS.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_WTRT_P_BLC.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_WTRT_P_BOL.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_WTRT_P_SOL.Rd |only surveyPrev-2.0.0/surveyPrev/man/WS_WTRT_P_STN.Rd |only surveyPrev-2.0.0/surveyPrev/man/ZambiaAdm1.Rd | 2 surveyPrev-2.0.0/surveyPrev/man/ZambiaAdm2.Rd | 2 surveyPrev-2.0.0/surveyPrev/man/addNewIndicator.Rd |only surveyPrev-2.0.0/surveyPrev/man/addUpper.Rd |only surveyPrev-2.0.0/surveyPrev/man/adminInfo.Rd | 2 surveyPrev-2.0.0/surveyPrev/man/aggPopulation.Rd | 2 surveyPrev-2.0.0/surveyPrev/man/clusterInfo.Rd | 13 surveyPrev-2.0.0/surveyPrev/man/clusterModel.Rd | 41 surveyPrev-2.0.0/surveyPrev/man/clusterModel_u5mr.Rd |only surveyPrev-2.0.0/surveyPrev/man/datainfo.Rd |only surveyPrev-2.0.0/surveyPrev/man/directEST.Rd | 39 surveyPrev-2.0.0/surveyPrev/man/directEST_u5mr.Rd |only surveyPrev-2.0.0/surveyPrev/man/directEST_varfix.Rd |only surveyPrev-2.0.0/surveyPrev/man/exceedPlot.Rd |only surveyPrev-2.0.0/surveyPrev/man/fhModel.Rd | 24 surveyPrev-2.0.0/surveyPrev/man/getCovariate.Rd |only surveyPrev-2.0.0/surveyPrev/man/getDHSdata.Rd | 8 surveyPrev-2.0.0/surveyPrev/man/getDHSindicator.Rd | 72 surveyPrev-2.0.0/surveyPrev/man/getUR.Rd | 60 surveyPrev-2.0.0/surveyPrev/man/get_api_table.Rd | 14 surveyPrev-2.0.0/surveyPrev/man/get_geoBoundaries.Rd |only surveyPrev-2.0.0/surveyPrev/man/indicatorList.Rd |only surveyPrev-2.0.0/surveyPrev/man/intervalPlot.Rd | 22 surveyPrev-2.0.0/surveyPrev/man/match_all_result.Rd |only surveyPrev-2.0.0/surveyPrev/man/prevMap.Rd |only surveyPrev-2.0.0/surveyPrev/man/prevMap.web.Rd |only surveyPrev-2.0.0/surveyPrev/man/rankPlot.Rd |only surveyPrev-2.0.0/surveyPrev/man/ridgeprevPlot.Rd |only surveyPrev-2.0.0/surveyPrev/man/scatterPlot.Rd | 7 surveyPrev-2.0.0/surveyPrev/man/scatterPlot.web.Rd |only 472 files changed, 4903 insertions(+), 1542 deletions(-)
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut],
Milan Bouchet-Valat [aut],
Manuel Munoz-Marquez [aut, cre],
Liviu Andronic [ctb],
Michael Ash [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Vilmantas Gegzna [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ct [...truncated...]
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Diff between Rcmdr versions 2.12.3 dated 2026-05-03 and 2.13.0 dated 2026-06-19
DESCRIPTION | 11 MD5 | 45 - NAMESPACE | 1 NEWS | 9 R/Rcmdr-package.R | 4 R/cluster.R | 2 R/commander.R | 11 R/data-menu.R | 28 - R/utilities.R | 10 inst/doc/Commander-ru.pdf |binary inst/doc/Empezando-con-Rcmdr-es.pdf |binary inst/doc/Getting-Started-with-the-Rcmdr-ja.pdf |binary inst/doc/Getting-Started-with-the-Rcmdr-ko.pdf |binary inst/doc/Getting-Started-with-the-Rcmdr.pdf |binary inst/po/pl/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/sl/LC_MESSAGES/R-Rcmdr.mo |binary man/Compute.Rd | 3 man/Rcmdr-package.Rd | 4 man/RecodeDialog.Rd | 2 man/dropUnusedFactorLevels.Rd |only po/R-Rcmdr.pot | 2 po/R-es.po | 2 po/R-pl.po | 689 ++++++++++++++++++++++--- po/R-sl.po | 315 ++++------- 24 files changed, 823 insertions(+), 315 deletions(-)
Title: 'caret' Applications for Spatial-Temporal Models
Description: Supporting functionality to run 'caret' with spatial or spatial-temporal data.
'caret' is a frequently used package for model training and prediction using machine learning.
CAST includes functions to improve spatial or spatial-temporal modelling tasks using 'caret'.
It includes the newly suggested 'Nearest neighbor distance matching' cross-validation to estimate
the performance of spatial prediction models and allows for spatial variable selection to selects
suitable predictor variables in view to their contribution to the spatial model performance.
CAST further includes functionality to estimate the (spatial) area of applicability of prediction models.
Methods are described in
Meyer et al. (2018) <doi:10.1016/j.envsoft.2017.12.001>;
Meyer et al. (2019) <doi:10.1016/j.ecolmodel.2019.108815>;
Meyer and Pebesma (2021) <doi:10.1111/2041-210X.13650>;
Milà et al. (2022) <doi:10.1111/2041-210X.13851>;
Meyer and Pebesma (2022) <doi:10.1038/s41467-022-29838-9>;
L [...truncated...]
Author: Hanna Meyer [cre, aut],
Carles Mila [aut],
Marvin Ludwig [aut],
Jan Linnenbrink [aut],
Fabian Schumacher [aut],
Philipp Otto [ctb],
Chris Reudenbach [ctb],
Thomas Nauss [ctb],
Edzer Pebesma [ctb],
Jakub Nowosad [ctb],
Darius Goergen [ctb]
Maintainer: Hanna Meyer <hanna.meyer@uni-muenster.de>
Diff between CAST versions 1.0.4 dated 2026-01-26 and 1.1.0 dated 2026-06-19
CAST-1.0.4/CAST/man/print.Rd |only CAST-1.0.4/CAST/tests/testthat/test_trainDI.R |only CAST-1.1.0/CAST/DESCRIPTION | 63 - CAST-1.1.0/CAST/MD5 | 108 +- CAST-1.1.0/CAST/NAMESPACE | 6 CAST-1.1.0/CAST/NEWS.md | 19 CAST-1.1.0/CAST/R/CreateSpacetimeFolds.R | 13 CAST-1.1.0/CAST/R/aoa.R | 222 +--- CAST-1.1.0/CAST/R/errorProfiles.R | 19 CAST-1.1.0/CAST/R/ffs.R | 474 +++++---- CAST-1.1.0/CAST/R/geodist.R | 953 +++++++++----------- CAST-1.1.0/CAST/R/knndm.R | 582 ++++++++---- CAST-1.1.0/CAST/R/nndm.R | 2 CAST-1.1.0/CAST/R/plot.R | 832 ++++++++++------- CAST-1.1.0/CAST/R/print.R | 80 - CAST-1.1.0/CAST/R/trainDI.R | 67 - CAST-1.1.0/CAST/README.md | 23 CAST-1.1.0/CAST/inst/doc/cast01-CAST-intro.R | 44 CAST-1.1.0/CAST/inst/doc/cast01-CAST-intro.Rmd | 80 - CAST-1.1.0/CAST/inst/doc/cast01-CAST-intro.html | 246 ++--- CAST-1.1.0/CAST/inst/doc/cast02-plotgeodist.R | 52 - CAST-1.1.0/CAST/inst/doc/cast02-plotgeodist.Rmd | 71 - CAST-1.1.0/CAST/inst/doc/cast02-plotgeodist.html | 146 +-- CAST-1.1.0/CAST/inst/doc/cast03-CV.R | 4 CAST-1.1.0/CAST/inst/doc/cast03-CV.Rmd | 17 CAST-1.1.0/CAST/inst/doc/cast03-CV.html | 66 - CAST-1.1.0/CAST/inst/doc/cast04-AOA-tutorial.R | 36 CAST-1.1.0/CAST/inst/doc/cast04-AOA-tutorial.Rmd | 58 - CAST-1.1.0/CAST/inst/doc/cast04-AOA-tutorial.html | 146 +-- CAST-1.1.0/CAST/inst/doc/cast05-parallel.Rmd | 4 CAST-1.1.0/CAST/inst/doc/cast05-parallel.html | 21 CAST-1.1.0/CAST/man/CreateSpacetimeFolds.Rd | 1 CAST-1.1.0/CAST/man/aoa.Rd | 20 CAST-1.1.0/CAST/man/errorProfiles.Rd | 2 CAST-1.1.0/CAST/man/ffs.Rd | 26 CAST-1.1.0/CAST/man/figures/CAST_workflow.png |binary CAST-1.1.0/CAST/man/geodist.Rd | 82 + CAST-1.1.0/CAST/man/knndm.Rd | 104 +- CAST-1.1.0/CAST/man/nndm.Rd | 2 CAST-1.1.0/CAST/man/plot.Rd | 6 CAST-1.1.0/CAST/man/print.aoa.Rd |only CAST-1.1.0/CAST/man/print.ffs.Rd |only CAST-1.1.0/CAST/man/print.knndm.Rd |only CAST-1.1.0/CAST/man/print.nndm.Rd |only CAST-1.1.0/CAST/man/print.trainDI.Rd |only CAST-1.1.0/CAST/man/trainDI.Rd | 2 CAST-1.1.0/CAST/tests/testthat/test-aoa.R | 36 CAST-1.1.0/CAST/tests/testthat/test-bss.R |only CAST-1.1.0/CAST/tests/testthat/test-errorProfiles.R | 74 + CAST-1.1.0/CAST/tests/testthat/test-fss.R | 82 + CAST-1.1.0/CAST/tests/testthat/test-geodist.R | 157 ++- CAST-1.1.0/CAST/tests/testthat/test-knndm.R | 83 + CAST-1.1.0/CAST/tests/testthat/test-nndm.R | 33 CAST-1.1.0/CAST/tests/testthat/test-normalize_DI.R |only CAST-1.1.0/CAST/tests/testthat/test-trainDI.R |only CAST-1.1.0/CAST/vignettes/cast01-CAST-intro.Rmd | 80 - CAST-1.1.0/CAST/vignettes/cast02-plotgeodist.Rmd | 71 - CAST-1.1.0/CAST/vignettes/cast03-CV.Rmd | 17 CAST-1.1.0/CAST/vignettes/cast04-AOA-tutorial.Rmd | 58 - CAST-1.1.0/CAST/vignettes/cast05-parallel.Rmd | 4 60 files changed, 3176 insertions(+), 2218 deletions(-)
Title: Zebra-Striped Tables in LaTeX and HTML Formats
Description: Makes zebra-striped tables (tables with alternating row colors)
in LaTeX and HTML formats easily from a data.frame, matrix, lm, aov, anova,
glm, coxph, nls, fitdistr, mytable and cbind.mytable objects.
Author: Keon-Woong Moon [aut, cre]
Maintainer: Keon-Woong Moon <cardiomoon@gmail.com>
Diff between ztable versions 0.2.3 dated 2021-09-28 and 0.2.5 dated 2026-06-19
DESCRIPTION | 8 MD5 | 40 NAMESPACE | 2 NEWS | 142 +- R/parallelTables.R | 10 R/ztable.R | 4 R/ztable.cbind.mytable.R | 7 R/ztable2flextable.R | 4 R/zzz.R | 2 build/vignette.rds |binary inst/doc/heatmapTable.R | 6 inst/doc/heatmapTable.html | 624 +++++++---- inst/doc/ztable.R | 4 inst/doc/ztable.html | 2390 +++++++++++++++++++++----------------------- inst/doc/ztable_update.R | 14 inst/doc/ztable_update.Rmd | 2 inst/doc/ztable_update.html | 994 +++++++++--------- man/update_ztable.Rd | 2 man/ztable.Rd | 28 man/ztable_sub.Rd | 2 vignettes/ztable_update.Rmd | 2 21 files changed, 2242 insertions(+), 2045 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started.
Author: Robert J. Hijmans [cre, aut] ,
Andrew Brown [aut] ,
Marcia Barbosa [aut] ,
Krzysztof Dyba [ctb] ,
Roger Bivand [ctb] ,
Michael Chirico [ctb] ,
Emanuele Cordano [ctb] ,
Edzer Pebesma [ctb] ,
Barry Rowlingson [ctb] ,
Michael D. Sumner [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.9-27 dated 2026-05-10 and 1.9-34 dated 2026-06-19
terra-1.9-27/terra/src/spatGraph.h |only terra-1.9-34/terra/DESCRIPTION | 12 terra-1.9-34/terra/MD5 | 157 +-- terra-1.9-34/terra/NAMESPACE | 6 terra-1.9-34/terra/NEWS.md | 46 - terra-1.9-34/terra/R/Aclasses.R | 24 terra-1.9-34/terra/R/Agenerics.R | 10 terra-1.9-34/terra/R/RcppExports.R | 4 terra-1.9-34/terra/R/SpatNetwork.R |only terra-1.9-34/terra/R/SpatRasterDataset.R | 15 terra-1.9-34/terra/R/colors.R | 65 + terra-1.9-34/terra/R/generics.R | 2 terra-1.9-34/terra/R/geom.R | 3 terra-1.9-34/terra/R/kml.R | 105 ++ terra-1.9-34/terra/R/messages.R | 10 terra-1.9-34/terra/R/plotRGB.R | 5 terra-1.9-34/terra/R/plot_axes.R | 35 terra-1.9-34/terra/R/plot_raster.R | 3 terra-1.9-34/terra/R/rasterize.R | 744 ++++++++--------- terra-1.9-34/terra/R/regress.R | 97 ++ terra-1.9-34/terra/R/sample.R | 27 terra-1.9-34/terra/R/show.R | 4 terra-1.9-34/terra/R/vect.R | 17 terra-1.9-34/terra/inst/ex/lux_highways.rds |only terra-1.9-34/terra/inst/ex/sent2_L2A_2024-08-24.tif |only terra-1.9-34/terra/inst/tinytest/test_network.R |only terra-1.9-34/terra/inst/tinytest/test_network_gnm.R |only terra-1.9-34/terra/inst/tinytest/test_network_igraph.R |only terra-1.9-34/terra/man/RGB.Rd | 2 terra-1.9-34/terra/man/SpatVector-class.Rd | 2 terra-1.9-34/terra/man/ar_info.Rd | 4 terra-1.9-34/terra/man/as.character.Rd | 9 terra-1.9-34/terra/man/ext.Rd | 2 terra-1.9-34/terra/man/extract.Rd | 2 terra-1.9-34/terra/man/grid.Rd | 4 terra-1.9-34/terra/man/is.flipped.Rd | 2 terra-1.9-34/terra/man/make.RGB.Rd |only terra-1.9-34/terra/man/makeVRT.Rd | 2 terra-1.9-34/terra/man/mappal.Rd | 2 terra-1.9-34/terra/man/nearby.Rd | 2 terra-1.9-34/terra/man/netw.Rd |only terra-1.9-34/terra/man/regress.Rd | 46 - terra-1.9-34/terra/man/shade.Rd | 2 terra-1.9-34/terra/man/shortestPath.Rd |only terra-1.9-34/terra/man/sprc.Rd | 4 terra-1.9-34/terra/man/terra-package.Rd | 8 terra-1.9-34/terra/man/tessellate.Rd | 2 terra-1.9-34/terra/man/topology.Rd | 10 terra-1.9-34/terra/man/units.Rd | 4 terra-1.9-34/terra/man/varnames.Rd | 6 terra-1.9-34/terra/man/vector_layers.Rd | 4 terra-1.9-34/terra/man/voronoi.Rd | 2 terra-1.9-34/terra/man/writeNetwork.Rd |only terra-1.9-34/terra/man/zonal.Rd | 4 terra-1.9-34/terra/src/Makevars.ucrt | 1 terra-1.9-34/terra/src/RcppExports.cpp | 11 terra-1.9-34/terra/src/RcppFunctions.cpp | 121 ++ terra-1.9-34/terra/src/RcppModule.cpp | 50 - terra-1.9-34/terra/src/crs.cpp | 48 + terra-1.9-34/terra/src/crs.h | 19 terra-1.9-34/terra/src/dijkstra.h |only terra-1.9-34/terra/src/distRaster.cpp | 2 terra-1.9-34/terra/src/extract.cpp | 334 +++++++ terra-1.9-34/terra/src/file_utils.cpp | 52 + terra-1.9-34/terra/src/file_utils.h | 2 terra-1.9-34/terra/src/focal.cpp | 1 terra-1.9-34/terra/src/gdal_algs.cpp | 35 terra-1.9-34/terra/src/gdal_multidimensional.cpp | 125 ++ terra-1.9-34/terra/src/gdalio.cpp | 23 terra-1.9-34/terra/src/geos_methods.cpp | 298 ++++++ terra-1.9-34/terra/src/raster_methods.cpp | 37 terra-1.9-34/terra/src/raster_stats.cpp | 26 terra-1.9-34/terra/src/read_gdal.cpp | 159 +++ terra-1.9-34/terra/src/read_ogr.cpp | 39 terra-1.9-34/terra/src/sample.cpp | 2 terra-1.9-34/terra/src/show.cpp | 29 terra-1.9-34/terra/src/spatBase.h | 5 terra-1.9-34/terra/src/spatNetwork.cpp |only terra-1.9-34/terra/src/spatNetwork.h |only terra-1.9-34/terra/src/spatNetwork_gnm.cpp |only terra-1.9-34/terra/src/spatRaster.cpp | 1 terra-1.9-34/terra/src/spatRaster.h | 1 terra-1.9-34/terra/src/spatRasterMultiple.h | 1 terra-1.9-34/terra/src/spatVector.cpp | 45 - terra-1.9-34/terra/src/spatVector.h | 4 terra-1.9-34/terra/src/vector_methods.cpp | 150 ++- terra-1.9-34/terra/src/write_gdal.cpp | 5 87 files changed, 2390 insertions(+), 752 deletions(-)
More information about OrdinalCompositions at CRAN
Permanent link
Title: Generalized Additive Models with Hyper Column
Description: An interactive HTML widget of the perspective plot for generalized additive models. An alternative solution of the function mgcv::vis.gam(). This R package author has retired from academic research. Accordingly, this package should not be considered a validated tool for use in peer-reviewed publications or as the basis for grant applications. Backward compatibility with user-code published in <doi:10.1093/bioinformatics/btaf182> and <doi:10.1093/bioinformatics/btaf430> is not maintained in versions >= 0.3.0 of this package. The authors of those publications are the appropriate contacts for reproducibility inquiries.
Author: Tingting Zhan [aut, cre] ,
Erjia Cui [ctb]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between hyper.gam versions 0.3.1 dated 2026-06-13 and 0.3.2 dated 2026-06-19
DESCRIPTION | 10 ++++----- MD5 | 9 ++++---- NAMESPACE | 4 +++ R/0PACKAGE.R | 49 ++++++++++++++++++++++++++++++++++++++++++++++- build |only man/hyper.gam-package.Rd | 14 +++++++++++-- 6 files changed, 74 insertions(+), 12 deletions(-)
Title: Augmented and Penalized Minimization Method L0
Description: Fit linear, logistic and Cox models regularized with L0, lasso
(L1), elastic-net (L1 and L2), or net (L1 and Laplacian) penalty, and
their adaptive forms, such as adaptive lasso / elastic-net and net
adjusting for signs of linked coefficients. It solves the L0 penalty
problem by simultaneously selecting regularization parameters and
performing hard-thresholding or selecting the number of non-zeros. This
augmented and penalized minimization method provides an approximation
solution to the L0 penalty problem, but runs as fast as L1 regularization.
The package uses a one-step coordinate descent algorithm and runs extremely
fast by taking into account the sparsity structure of coefficients. It can
handle very high dimensional data and has superior selection performance.
Author: Xiang Li [aut, cre],
Shanghong Xie [aut],
Donglin Zeng [aut],
Yuanjia Wang [aut]
Maintainer: Xiang Li <spiritcoke@gmail.com>
This is a re-admission after prior archival of version 0.10 dated 2020-01-19
Diff between APML0 versions 0.10 dated 2020-01-19 and 0.11 dated 2026-06-19
DESCRIPTION | 36 MD5 | 29 NAMESPACE | 3 R/APML0.R | 26 R/RcppExports.R | 104 + R/net_cox.R | 231 ++- R/net_lm.R | 300 ++++- R/net_logit.R | 192 ++- build |only inst/CITATION |only inst/WORDLIST |only inst/include/APML0_RcppExports.h | 300 +++-- man/APML0-package.Rd | 98 - man/APML0.Rd | 309 +++-- man/print.APML0.Rd | 41 src/APML0.cpp | 2303 ++++++++++++++++++++++++--------------- src/RcppExports.cpp | 747 +++++++++--- 17 files changed, 3143 insertions(+), 1576 deletions(-)
Title: UK Flood Estimation
Description: Functions to implement the methods of the Flood Estimation Handbook (FEH), associated updates and the revitalised flood hydrograph model (ReFH). Currently the package uses NRFA peak flow dataset version 14. Aside from FEH functionality, further hydrological functions are available. Most of the methods implemented in this package are described in one or more of the following: "Flood Estimation Handbook", Centre for Ecology & Hydrology (1999, ISBN:0 948540 94 X). "Flood Estimation Handbook Supplementary Report No. 1", Kjeldsen (2007, ISBN:0 903741 15 7). "Regional Frequency Analysis - an approach based on L-moments", Hosking & Wallis (1997, ISBN: 978 0 521 01940 8). "Making better use of local data in flood frequency estimation", Environment Agency (2017, ISBN: 978 1 84911 387 8). "Sampling uncertainty of UK design flood estimation" , Hammond (2021, <doi:10.2166/nh.2021.059>). "The FEH 2025 statistical method update", UK Centre for Ecology and Hydrology (2025). "Low flow es [...truncated...]
Author: Anthony Hammond [aut, cre]
Maintainer: Anthony Hammond <agqhammond@gmail.com>
Diff between UKFE versions 2.0.1 dated 2026-05-01 and 2.0.2 dated 2026-06-19
DESCRIPTION | 11 ++ MD5 | 120 +++++++++++++++++++----------- NEWS.md |only R/All.R | 16 ++-- R/FEH08.R | 44 ++++++++--- R/GetData.R | 51 +++++++++++- README.md |only build |only data/AMPF.rda |binary data/PeakFlowData.rda |binary data/ThamesPQ.rda |binary data/UKOutline.rda |binary inst |only man/AMImport.Rd | 60 +++++++-------- man/AddGauge.Rd | 104 +++++++++++++------------- man/BFI.Rd | 70 ++++++++--------- man/Bootstrap.Rd | 92 +++++++++++------------ man/CDsXML.Rd | 58 +++++++------- man/DDF.Rd | 82 ++++++++++---------- man/DDFImport.Rd | 86 ++++++++++----------- man/DesHydro.Rd | 102 ++++++++++++------------- man/DiagPlots.Rd | 65 +++++++--------- man/DonAdj.Rd | 70 ++++++++--------- man/ERPlot.Rd | 96 ++++++++++++------------ man/EVPool.Rd | 110 +++++++++++++-------------- man/FlowSplit.Rd | 116 ++++++++++++++--------------- man/GetCDs.Rd | 58 +++++++------- man/GetDataEA_QH.Rd | 154 +++++++++++++++++++------------------- man/GetDataNRFA.Rd | 78 +++++++++---------- man/HydroPlot.Rd | 116 ++++++++++++++--------------- man/Kappa3GF.Rd | 66 ++++++++-------- man/LRatioChange.Rd | 78 +++++++++---------- man/LcvUrb.Rd | 64 ++++++++-------- man/NonFloodAdjPool.Rd | 76 +++++++++---------- man/OptimPars.Rd | 64 ++++++++-------- man/POTextract.Rd | 144 ++++++++++++++++++------------------ man/Pool.Rd | 92 +++++++++++------------ man/PoolEst.Rd | 118 ++++++++++++++--------------- man/QMED.Rd | 152 +++++++++++++++++++------------------- man/QMEDDonEq.Rd | 126 +++++++++++++++---------------- man/QMED_FEH08.Rd | 4 - man/QuickResults.Rd | 107 +++++++++++++-------------- man/Rating.Rd | 80 ++++++++++---------- man/ReFH.Rd | 194 ++++++++++++++++++++++++------------------------- man/TrendTest.Rd | 94 +++++++++++------------ man/UAF.Rd | 80 ++++++++++---------- man/UEF.Rd | 56 +++++++------- man/Uncertainty.Rd | 94 +++++++++++------------ man/Zdists.Rd | 64 ++++++++-------- vignettes |only 50 files changed, 1806 insertions(+), 1706 deletions(-)
Title: Reproducible Research with a Table of R Codes
Description: Makes documents containing plots and tables from a table of R codes.
Can make "HTML", "pdf('LaTex')", "docx('MS Word')" and "pptx('MS Powerpoint')" documents with or without R code.
In the package, modularized 'shiny' app codes are provided. These modules are intended for reuse across applications.
Author: Keon-Woong Moon [aut, cre]
Maintainer: Keon-Woong Moon <cardiomoon@gmail.com>
Diff between rrtable versions 0.3.0 dated 2022-04-04 and 0.3.4 dated 2026-06-19
DESCRIPTION | 8 - MD5 | 32 ++-- NAMESPACE | 1 NEWS.md | 174 ++++++++++--------------- R/add_2ggplots.R | 2 R/chooserEx.R | 4 R/data2office.R | 10 - R/data2plotzip.R | 2 R/df2flextable.R | 4 R/image2pptx.R | 7 - R/plot2pptx.R | 34 ++++ R/pptxList.R | 2 build/vignette.rds |binary inst/doc/Update.R | 34 ++-- inst/doc/Update.html | 159 +++++++++++----------- inst/doc/rrtable.R | 18 +- inst/doc/rrtable.html | 348 +++++++++++++++++++++----------------------------- 17 files changed, 398 insertions(+), 441 deletions(-)
Title: Creating and Working with Pedigrees and Marker Data
Description: A comprehensive collection of tools for creating,
manipulating and visualising pedigrees and genetic marker data.
Pedigrees can be read from text files or created on the fly with
built-in functions. A range of utilities enable modifications like
adding or removing individuals, breaking loops, and merging pedigrees.
An online tool for creating pedigrees interactively, based on
'pedtools', is available at <https://magnusdv.shinyapps.io/quickped>.
'pedtools' is the hub of the 'pedsuite', a collection of packages for
pedigree analysis. A detailed presentation of the 'pedsuite' is given
in the book 'Pedigree Analysis in R' (Vigeland, 2021,
ISBN:9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedtools versions 2.10.0 dated 2026-02-01 and 2.11.0 dated 2026-06-19
DESCRIPTION | 8 MD5 | 95 +-- NAMESPACE | 4 NEWS.md | 25 R/getMap.R | 6 R/marker.R | 10 R/marker_allelematrix.R | 36 - R/marker_attach.R | 10 R/marker_database.R | 4 R/marker_distribute.R | 6 R/marker_genomatrix.R | 4 R/marker_locusattributes.R | 10 R/marker_print.R | 2 R/marker_setattr_inplace.R | 2 R/marker_transfer.R | 4 R/mergePed.R | 10 R/ped.R | 152 ++--- R/ped_complex.R | 4 R/ped_connected.R | 71 +- R/ped_convert.R | 4 R/ped_founder-inbreeding.R | 18 R/ped_internal.R | 8 R/ped_labels.R | 12 R/ped_loops.R | 773 +++++++++++++++++++++--------- R/ped_methods.R | 2 R/ped_modify.R | 16 R/ped_plot.R | 2 R/ped_sex.R | 2 R/ped_subgroups.R | 60 ++ R/ped_utils.R | 127 ++-- R/plot_methods.R | 6 R/randomPed.R | 69 +- R/utils.R | 13 build/vignette.rds |binary inst/doc/pedtools.html | 6 man/breakLoops.Rd |only man/inbreedingLoops.Rd | 96 --- man/newPed.Rd | 4 man/ped.Rd | 4 man/ped_subgroups.Rd | 16 man/ped_utils.Rd | 8 man/pedtools-package.Rd | 5 man/validatePed.Rd | 15 tests/testthat/test-marker-allelematrix.R | 12 tests/testthat/test-ped-creation.R | 26 - tests/testthat/test-ped-loops.R | 56 ++ tests/testthat/test-ped-relatives.R | 12 tests/testthat/test-ped-utils.R | 33 + tests/testthat/test-ped-various.R | 9 49 files changed, 1204 insertions(+), 673 deletions(-)
Title: Interactive Graphics for QTL Experiments
Description: Web-based interactive charts (using D3.js) for the analysis of
experimental crosses to identify genetic loci (quantitative trait
loci, QTL) contributing to variation in quantitative traits.
Broman (2015) <doi:10.1534/genetics.114.172742>.
Author: Karl W Broman [aut, cre] ,
Michael Bostock [ctb, cph] ,
jQuery Foundation [cph] ,
jQuery contributors [ctb] ,
jQuery UI contributors [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtlcharts versions 0.20 dated 2026-05-23 and 0.22 dated 2026-06-19
DESCRIPTION | 8 LICENSE | 4 MD5 | 241 ++++++----- NAMESPACE | 3 NEWS.md | 60 ++ R/chartOpts.R | 16 R/grav-data.R | 2 R/iboxplot.R | 6 R/idotplot.R | 10 R/iheatmap.R | 2 R/ipleiotropy.R | 1 R/iplot.R | 2 R/iplotCorr.R | 15 R/iplotCurves.R | 2 R/iplotMScanone.R | 4 R/iplotMap.R | 17 R/iplotPXG.R | 6 R/iplotRF.R | 15 R/iplotScanone.R | 2 R/iplotScantwo.R | 2 R/itimeplot.R |only R/itriplot.R | 2 R/qtlcharts.R | 8 R/scat2scat.R | 2 README.md | 25 - build |only inst/LICENSE | 4 inst/htmlwidgets/iboxplot.js | 18 inst/htmlwidgets/iboxplot.yaml | 4 inst/htmlwidgets/idotplot.js | 18 inst/htmlwidgets/idotplot.yaml | 4 inst/htmlwidgets/iheatmap.js | 18 inst/htmlwidgets/iheatmap.yaml | 4 inst/htmlwidgets/ipleiotropy.js | 18 inst/htmlwidgets/ipleiotropy.yaml | 4 inst/htmlwidgets/iplot.js | 18 inst/htmlwidgets/iplot.yaml | 4 inst/htmlwidgets/iplotCorr.js | 26 - inst/htmlwidgets/iplotCorr.yaml | 4 inst/htmlwidgets/iplotCurves.js | 18 inst/htmlwidgets/iplotCurves.yaml | 4 inst/htmlwidgets/iplotMScanone.js | 19 inst/htmlwidgets/iplotMScanone.yaml | 4 inst/htmlwidgets/iplotMap.js | 18 inst/htmlwidgets/iplotMap.yaml | 4 inst/htmlwidgets/iplotRF.js | 18 inst/htmlwidgets/iplotRF.yaml | 4 inst/htmlwidgets/iplotScanone.js | 19 inst/htmlwidgets/iplotScanone.yaml | 4 inst/htmlwidgets/iplotScantwo.coffee | 1 inst/htmlwidgets/iplotScantwo.js | 21 - inst/htmlwidgets/iplotScantwo.yaml | 4 inst/htmlwidgets/itimeplot.coffee |only inst/htmlwidgets/itimeplot.js |only inst/htmlwidgets/itimeplot.yaml |only inst/htmlwidgets/itriplot.js | 18 inst/htmlwidgets/itriplot.yaml | 4 inst/htmlwidgets/lib/d3panels/d3panels.min.js | 2 inst/htmlwidgets/lib/d3panels/package.json | 2 inst/htmlwidgets/lib/qtlcharts/iboxplot.coffee | 6 inst/htmlwidgets/lib/qtlcharts/iboxplot.js | 129 +++--- inst/htmlwidgets/lib/qtlcharts/idotplot.coffee | 2 inst/htmlwidgets/lib/qtlcharts/idotplot.js | 18 inst/htmlwidgets/lib/qtlcharts/iheatmap.coffee | 2 inst/htmlwidgets/lib/qtlcharts/iheatmap.js | 59 +- inst/htmlwidgets/lib/qtlcharts/ipleiotropy.coffee | 4 inst/htmlwidgets/lib/qtlcharts/ipleiotropy.js | 231 +++-------- inst/htmlwidgets/lib/qtlcharts/iplot.coffee | 2 inst/htmlwidgets/lib/qtlcharts/iplot.js | 18 inst/htmlwidgets/lib/qtlcharts/iplotCorr.coffee | 14 inst/htmlwidgets/lib/qtlcharts/iplotCorr.js | 161 +++---- inst/htmlwidgets/lib/qtlcharts/iplotCorr_noscat.coffee | 5 inst/htmlwidgets/lib/qtlcharts/iplotCorr_noscat.js | 79 +-- inst/htmlwidgets/lib/qtlcharts/iplotCurves.coffee | 4 inst/htmlwidgets/lib/qtlcharts/iplotCurves.js | 70 +-- inst/htmlwidgets/lib/qtlcharts/iplotMScanone_eff.coffee | 4 inst/htmlwidgets/lib/qtlcharts/iplotMScanone_eff.js | 92 ++-- inst/htmlwidgets/lib/qtlcharts/iplotMScanone_noeff.coffee | 4 inst/htmlwidgets/lib/qtlcharts/iplotMScanone_noeff.js | 98 ++-- inst/htmlwidgets/lib/qtlcharts/iplotMap.coffee | 37 + inst/htmlwidgets/lib/qtlcharts/iplotMap.js | 97 +++- inst/htmlwidgets/lib/qtlcharts/iplotRF.coffee | 4 inst/htmlwidgets/lib/qtlcharts/iplotRF.js | 112 +++-- inst/htmlwidgets/lib/qtlcharts/iplotScanone_ci.coffee | 3 inst/htmlwidgets/lib/qtlcharts/iplotScanone_ci.js | 121 +---- inst/htmlwidgets/lib/qtlcharts/iplotScanone_noeff.coffee | 2 inst/htmlwidgets/lib/qtlcharts/iplotScanone_noeff.js | 16 inst/htmlwidgets/lib/qtlcharts/iplotScanone_pxg.coffee | 3 inst/htmlwidgets/lib/qtlcharts/iplotScanone_pxg.js | 68 +-- inst/htmlwidgets/lib/qtlcharts/iplotScantwo.coffee | 7 inst/htmlwidgets/lib/qtlcharts/iplotScantwo.js | 286 +++++++------- inst/htmlwidgets/lib/qtlcharts/itimeplot.coffee |only inst/htmlwidgets/lib/qtlcharts/itimeplot.js |only inst/htmlwidgets/lib/qtlcharts/itriplot.coffee | 2 inst/htmlwidgets/lib/qtlcharts/itriplot.js | 23 - inst/htmlwidgets/lib/qtlcharts/scat2scat.coffee | 3 inst/htmlwidgets/lib/qtlcharts/scat2scat.js | 25 - inst/htmlwidgets/package.json | 4 inst/htmlwidgets/scat2scat.js | 18 inst/htmlwidgets/scat2scat.yaml | 4 man/cbindQTLeffects.Rd | 4 man/estQTLeffects.Rd | 12 man/figures |only man/geneExpr.Rd | 4 man/grav.Rd | 6 man/iboxplot.Rd | 6 man/idotplot.Rd | 19 man/iheatmap.Rd | 10 man/ipleiotropy.Rd | 25 - man/iplot.Rd | 8 man/iplotCorr.Rd | 26 - man/iplotCurves.Rd | 4 man/iplotMScanone.Rd | 24 - man/iplotMap.Rd | 10 man/iplotPXG.Rd | 22 - man/iplotRF.Rd | 21 - man/iplotScanone.Rd | 31 - man/iplotScantwo.Rd | 22 - man/itimeplot.Rd |only man/itriplot.Rd | 4 man/qtlcharts-package.Rd | 23 - man/qtlcharts-shiny.Rd | 27 - man/scat2scat.Rd | 10 man/setScreenSize.Rd | 4 tests/Rmdtest/Rmdtest.Rmd | 19 tests/Rmdtest/itimeplot.Rmd |only tests/htmltest/itimeplot.R |only 127 files changed, 1553 insertions(+), 1388 deletions(-)
Title: Spatial Ecology Miscellaneous Methods
Description: Collection of R functions and data sets for the support of spatial ecology analyses with a focus on pre, core and post modelling analyses of species distribution, niche quantification and community assembly. Written by current and former members and collaborators of the ecospat group of Antoine Guisan, Department of Ecology and Evolution (DEE) and Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Switzerland. Read Di Cola et al. (2016) <doi:10.1111/ecog.02671> for details.
Author: Olivier Broennimann [cre, aut, ctb],
Valeria Di Cola [aut, ctb],
Blaise Petitpierre [ctb],
Frank Breiner [ctb],
Daniel Scherrer [ctb],
Manuela D`Amen [ctb],
Christophe Randin [ctb],
Robin Engler [ctb],
Wim Hordijk [ctb],
Heidi Mod [ctb],
Julien Potti [...truncated...]
Maintainer: Olivier Broennimann <olivier.broennimann@unil.ch>
Diff between ecospat versions 4.1.3 dated 2026-01-23 and 4.1.4 dated 2026-06-19
ecospat-4.1.3/ecospat/R/ecospat.CCV.R |only ecospat-4.1.3/ecospat/man/ecospat.CCV.communityEvaluation.bin.Rd |only ecospat-4.1.3/ecospat/man/ecospat.CCV.communityEvaluation.prob.Rd |only ecospat-4.1.3/ecospat/man/ecospat.CCV.createDataSplitTable.Rd |only ecospat-4.1.3/ecospat/man/ecospat.CCV.modeling.Rd |only ecospat-4.1.4/ecospat/DESCRIPTION | 50 ecospat-4.1.4/ecospat/MD5 | 35 ecospat-4.1.4/ecospat/NAMESPACE | 4 ecospat-4.1.4/ecospat/NEWS | 9 ecospat-4.1.4/ecospat/R/ecospat.ESM.R | 763 +++++----- ecospat-4.1.4/ecospat/R/ecospat.ESM.responsePlot.R | 212 +- ecospat-4.1.4/ecospat/R/ecospat.cv.R | 195 +- ecospat-4.1.4/ecospat/build/partial.rdb |binary ecospat-4.1.4/ecospat/build/vignette.rds |binary ecospat-4.1.4/ecospat/inst/doc/vignette_ecospat_package.R | 105 - ecospat-4.1.4/ecospat/inst/doc/vignette_ecospat_package.Rmd | 111 - ecospat-4.1.4/ecospat/inst/doc/vignette_ecospat_package.pdf |binary ecospat-4.1.4/ecospat/man/ecospat-package.Rd | 2 ecospat-4.1.4/ecospat/man/ecospat.ESM.Modeling.Rd | 30 ecospat-4.1.4/ecospat/man/ecospat.ESM.Projection.Rd | 8 ecospat-4.1.4/ecospat/vignettes/vignette_ecospat_package.Rmd | 111 - 21 files changed, 865 insertions(+), 770 deletions(-)
Title: Estimation of Prevalence Ratios via Logistic Regression Models
Description: Estimates adjusted prevalence ratios (PR) and their confidence
intervals from logistic regression models, addressing the well-known
limitation of odds ratios (OR) as approximations to PR in cross-sectional
studies with common outcomes. Supports independent observations (glm()),
clustered/multilevel data (glmer() from 'lme4'), longitudinal data via
Generalised Estimating Equations (geeglm() from 'geepack'), and complex
survey designs (svyglm() from 'survey'). Inference is available via the
delta method (conditional and marginal standardisation) and via
bootstrap (normal-approximation and percentile intervals).
Continuous covariates are handled through user-specified or
median-based reference values; flexible baseline specification
allows any reference category to be chosen for factor predictors.
Based on the methodology described in Amorim & Ospina (2021)
<doi:10.1590/0001-3765202120190316>.
Author: Raydonal Ospina [aut, cre] ,
Leila D. Amorim [aut]
Maintainer: Raydonal Ospina <raydonal@de.ufpe.br>
This is a re-admission after prior archival of version 1.2 dated 2013-09-19
Diff between prLogistic versions 1.2 dated 2013-09-19 and 2.0.2 dated 2026-06-19
prLogistic-1.2/prLogistic/ChangeLog |only prLogistic-1.2/prLogistic/R/prcorrlog.R |only prLogistic-1.2/prLogistic/data/LBW.txt.gz |only prLogistic-1.2/prLogistic/data/Thailand.txt.gz |only prLogistic-1.2/prLogistic/data/Toenail.txt.gz |only prLogistic-1.2/prLogistic/data/UIS.txt.gz |only prLogistic-1.2/prLogistic/data/downer.txt.gz |only prLogistic-1.2/prLogistic/data/titanic.txt.gz |only prLogistic-1.2/prLogistic/man/notdocumentedyet.Rd |only prLogistic-2.0.2/prLogistic/DESCRIPTION | 57 +++- prLogistic-2.0.2/prLogistic/MD5 | 80 ++++- prLogistic-2.0.2/prLogistic/NAMESPACE | 35 +- prLogistic-2.0.2/prLogistic/NEWS.md |only prLogistic-2.0.2/prLogistic/R/class-prLogistic.R |only prLogistic-2.0.2/prLogistic/R/data-documentation.R |only prLogistic-2.0.2/prLogistic/R/prLogistic-package.R |only prLogistic-2.0.2/prLogistic/R/prLogisticBoot.R |only prLogistic-2.0.2/prLogistic/R/prLogisticDelta.R |only prLogistic-2.0.2/prLogistic/R/prLogisticGEE.R |only prLogistic-2.0.2/prLogistic/R/prLogisticSurvey.R |only prLogistic-2.0.2/prLogistic/R/standardisation.R |only prLogistic-2.0.2/prLogistic/R/utils-internal.R |only prLogistic-2.0.2/prLogistic/README.md |only prLogistic-2.0.2/prLogistic/build |only prLogistic-2.0.2/prLogistic/data/LBW.rda |only prLogistic-2.0.2/prLogistic/data/Thailand.rda |only prLogistic-2.0.2/prLogistic/data/Toenail.rda |only prLogistic-2.0.2/prLogistic/data/UIS.rda |only prLogistic-2.0.2/prLogistic/data/downer.rda |only prLogistic-2.0.2/prLogistic/data/titanic.rda |only prLogistic-2.0.2/prLogistic/inst |only prLogistic-2.0.2/prLogistic/man/LBW.Rd | 90 +++--- prLogistic-2.0.2/prLogistic/man/Thailand.Rd | 81 ++--- prLogistic-2.0.2/prLogistic/man/Toenail.Rd | 98 ++----- prLogistic-2.0.2/prLogistic/man/UIS.Rd | 97 ++---- prLogistic-2.0.2/prLogistic/man/coef.prLogistic.Rd |only prLogistic-2.0.2/prLogistic/man/confint.prLogistic.Rd |only prLogistic-2.0.2/prLogistic/man/downer.Rd | 81 +---- prLogistic-2.0.2/prLogistic/man/plot.prLogistic.Rd |only prLogistic-2.0.2/prLogistic/man/prLogistic-package.Rd |only prLogistic-2.0.2/prLogistic/man/prLogisticBootCond.Rd | 156 ++++------- prLogistic-2.0.2/prLogistic/man/prLogisticBootMarg.Rd | 155 +++-------- prLogistic-2.0.2/prLogistic/man/prLogisticDelta.Rd | 251 ++++++++++-------- prLogistic-2.0.2/prLogistic/man/prLogisticGEE.Rd |only prLogistic-2.0.2/prLogistic/man/prLogisticSurvey.Rd |only prLogistic-2.0.2/prLogistic/man/print.prLogistic.Rd |only prLogistic-2.0.2/prLogistic/man/summary.prLogistic.Rd |only prLogistic-2.0.2/prLogistic/man/titanic.Rd | 93 ++---- prLogistic-2.0.2/prLogistic/tests |only prLogistic-2.0.2/prLogistic/vignettes |only 50 files changed, 602 insertions(+), 672 deletions(-)
More information about nirs4alldatasets at CRAN
Permanent link
More information about nhscancerwaits at CRAN
Permanent link
Title: Mixed Models for Repeated Measures
Description: Mixed models for repeated measures (MMRM) are a popular
choice for analyzing longitudinal continuous outcomes in randomized
clinical trials and beyond; see Cnaan, Laird and Slasor (1997)
<doi:10.1002/(SICI)1097-0258(19971030)16:20%3C2349::AID-SIM667%3E3.0.CO;2-E>
for a tutorial and Mallinckrodt, Lane, Schnell, Peng and Mancuso
(2008) <doi:10.1177/009286150804200402> for a review. This package
implements MMRM based on the marginal linear model without random
effects using Template Model Builder ('TMB') which enables fast and
robust model fitting. Users can specify a variety of covariance
matrices, weight observations, fit models with restricted or standard
maximum likelihood inference, perform hypothesis testing with
Satterthwaite or Kenward-Roger adjustment, and extract least square
means estimates by using 'emmeans'.
Author: Daniel Sabanes Bove [aut, cre] ,
Liming Li [aut] ,
Julia Dedic [aut],
Doug Kelkhoff [aut],
Kevin Kunzmann [aut],
Brian Matthew Lang [aut],
Christian Stock [aut],
Ya Wang [aut],
Craig Gower-Page [ctb],
Dan James [aut],
Jonathan Sidi [aut],
Daniel Leib [...truncated...]
Maintainer: Daniel Sabanes Bove <daniel.sabanes_bove@rconis.com>
Diff between mmrm versions 0.3.17 dated 2026-01-08 and 0.3.18 dated 2026-06-19
DESCRIPTION | 19 MD5 | 112 NEWS.md | 13 R/cov_struct.R | 15 R/fit.R | 30 R/gcomp.R |only R/interop-emmeans.R | 190 + R/kenwardroger.R | 4 R/mmrm-methods.R | 3 R/tmb.R | 75 R/utils.R | 3 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 17 inst/doc/covariance.Rmd | 12 inst/doc/covariance.html | 14 inst/doc/introduction.R | 42 inst/doc/introduction.html | 2838 +++++++++++------------ inst/doc/kenward.Rmd | 59 inst/doc/kenward.html | 60 inst/doc/mmrm_review_methods.html | 79 inst/doc/model_robust_estimator.R |only inst/doc/model_robust_estimator.Rmd |only inst/doc/model_robust_estimator.html |only inst/doc/predict.Rmd | 10 inst/doc/predict.html | 13 man/COV_TYPES.Rd | 1 man/as.cov_struct.Rd | 6 man/cov_struct.Rd | 6 man/covariance_types.Rd | 14 man/emmeans_support.Rd | 2 man/fit_mmrm.Rd | 7 man/h_df_to_tibble.Rd | 2 man/h_mmrm_tmb_data.Rd | 21 man/mmrm-package.Rd | 3 man/mmrm.Rd | 12 man/mmrm_control.Rd | 10 man/position_symbol.Rd | 2 man/reexports.Rd | 2 man/stats_anova.Rd | 2 src/covariance.h | 16 src/derivatives.h | 64 src/empirical.cpp | 2 src/jacobian.cpp | 2 src/kr_comp.cpp | 2 tests/testthat/_snaps/kenwardroger.md | 15 tests/testthat/helper-examples.R | 26 tests/testthat/test-emmeans.R | 63 tests/testthat/test-fit.R | 38 tests/testthat/test-gcomp.R |only tests/testthat/test-interop-emmeans.R |only tests/testthat/test-kenwardroger.R | 29 tests/testthat/test-tmb-methods.R | 34 tests/testthat/test-tmb.R | 108 tests/testthat/test-utils.R | 8 vignettes/covariance.Rmd | 12 vignettes/kenward.Rmd | 59 vignettes/model_robust_estimator.Rmd |only vignettes/predict.Rmd | 10 vignettes/subsections/_intro-customizations.Rmd | 55 vignettes/subsections/_intro-customizations.html |only 61 files changed, 2705 insertions(+), 1536 deletions(-)
Title: Calibrated Color Ramps
Description: Value-calibrated color ramps can be useful to emphasize patterns in data from complex distributions. Colors can be tied to specific values, and the association can be expanded into full color ramps that also include the relationship between colors and values. Such ramps can be used in a variety of cases when heatmap-type plots are necessary, including the visualization of vector and raster spatial data, such as topographies.
Author: Adam T. Kocsis [cre, aut] ,
Deutsche Forschungsgemeinschaft [fnd],
FAU GeoZentrum Nordbayern [fnd]
Maintainer: Adam T. Kocsis <adam.t.kocsis@gmail.com>
Diff between rampage versions 0.2.0 dated 2025-07-07 and 0.2.1 dated 2026-06-19
DESCRIPTION | 10 +++++----- MD5 | 18 ++++++++++-------- NEWS.md | 11 ++++++++++- R/palettes.R | 19 ++++++++++++++++++- build/vignette.rds |binary data/bathymetry.RData |only data/paleomap.RData |binary data/topos.RData |binary inst/doc/rampage.html | 17 +++++++++-------- man/bathymetry.Rd |only man/topos.Rd | 3 ++- 11 files changed, 54 insertions(+), 24 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-05-06 1.1.1
2025-09-13 1.1.0
2024-04-05 1.0.1
2022-09-13 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-09-19 1.1.0
2024-10-23 1.0.1
2024-06-06 1.0.0
Title: Diagnostics for OMOP Common Data Model Drug Records
Description: Ingredient specific diagnostics for drug exposure records in the Observational Medical Outcomes Partnership (OMOP) common data model.
Author: Ger Inberg [aut, cre] ,
Edward Burn [aut] ,
Theresa Burkard [aut] ,
Yuchen Guo [ctb] ,
Marti Catala [ctb] ,
Mike Du [ctb] ,
Xintong Li [ctb] ,
Ross Williams [ctb] ,
Erasmus MC [cph]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>
Diff between DrugExposureDiagnostics versions 1.1.7 dated 2026-04-15 and 1.1.8 dated 2026-06-19
DESCRIPTION | 6 - MD5 | 44 ++++---- NEWS.md | 4 R/checkVerbatimEndDate.R | 2 README.md | 105 +++++++++++-------- build/vignette.rds |binary inst/doc/DaysSupply.html | 52 ++++----- inst/doc/DiagnosticsSummary.html | 32 +++--- inst/doc/DrugDose.html | 36 +++--- inst/doc/DrugDuration.html | 46 ++++---- inst/doc/DrugSig.html | 26 ++-- inst/doc/DrugSourceConcepts.html | 24 ++-- inst/doc/DrugTypes.html | 26 ++-- inst/doc/IntroductionToDrugExposureDiagnostics.R | 13 ++ inst/doc/IntroductionToDrugExposureDiagnostics.Rmd | 17 ++- inst/doc/IntroductionToDrugExposureDiagnostics.html | 106 +++++++++++--------- inst/doc/Missingness.html | 46 ++++---- inst/doc/Quantity.html | 40 +++---- inst/doc/Routes.html | 26 ++-- inst/doc/VerbatimEndDate.html | 34 +++--- tests/testthat/test-CheckVerbatimEndDate.R | 18 +++ tests/testthat/test-SyntheaSqlServer.R | 2 vignettes/IntroductionToDrugExposureDiagnostics.Rmd | 17 ++- 23 files changed, 406 insertions(+), 316 deletions(-)
More information about DrugExposureDiagnostics at CRAN
Permanent link
Title: Noncompartmental Analysis for Pharmacokinetic Report
Description: Conduct a noncompartmental analysis with industrial strength.
Some features are
1) CDISC SDTM terms
2) Automatic or manual slope selection
3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method
4) Interval(partial) AUCs with 'linear' or 'log' interpolation method
5) Produce pdf, rtf, text report files.
* Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107).
Author: Kyun-Seop Bae [aut, cre],
Michael E. Schaffer [ctb, cph]
Maintainer: Kyun-Seop Bae <k@acr.kr>
This is a re-admission after prior archival of version 0.6.0 dated 2026-04-24
Diff between ncar versions 0.6.0 dated 2026-04-24 and 0.6.1 dated 2026-06-19
DESCRIPTION | 30 +++++++++++++++++++----------- MD5 | 7 ++++--- NAMESPACE | 16 ++++++++++++++-- R/rtf_utils.R |only inst/NEWS.Rd | 5 +++++ 5 files changed, 42 insertions(+), 16 deletions(-)
Title: Flexible, Extensible, & Reproducible Pupillometry Preprocessing
Description: Pupillometry offers a non-invasive window into the mind and has been used extensively as a psychophysiological readout of arousal signals linked with cognitive processes like attention, stress, and emotional states [Clewett et al. (2020) <doi:10.1038/s41467-020-17851-9>; Kret & Sjak-Shie (2018) <doi:10.3758/s13428-018-1075-y>; Strauch (2024) <doi:10.1016/j.tins.2024.06.002>]. Yet, despite decades of pupillometry research, many established packages and workflows to date lack design patterns based on Findability, Accessibility, Interoperability, and Reusability (FAIR) principles [see Wilkinson et al. (2016) <doi:10.1038/sdata.2016.18>]. 'eyeris' provides a modular, performant, and extensible preprocessing framework for pupillometry data with BIDS-like organization and interactive output reports [Esteban et al. (2019) <doi:10.1038/s41592-018-0235-4>; Gorgolewski et al. (2016) <doi:10.1038/sdata.2016.44>]. Development was supported, in part, by the S [...truncated...]
Author: Shawn Schwartz [aut, cre] ,
Mingjian He [ctb],
Haopei Yang [ctb],
Alice Xue [ctb],
Gustavo Santiago-Reyes [ctb]
Maintainer: Shawn Schwartz <shawn.t.schwartz@gmail.com>
Diff between eyeris versions 3.1.0 dated 2026-06-05 and 3.2.0 dated 2026-06-19
DESCRIPTION | 8 MD5 | 145 +++++----- NAMESPACE | 2 NEWS.md | 30 ++ R/pipeline-bidsify.R | 48 ++- R/pipeline-bin.R | 7 R/pipeline-confounds.R | 83 ++++- R/pipeline-deblink.R | 7 R/pipeline-detransient.R | 7 R/pipeline-detrend.R | 7 R/pipeline-downsample.R | 7 R/pipeline-glassbox.R | 20 + R/pipeline-handler.R | 41 ++ R/pipeline-interpolate.R | 7 R/pipeline-loadasc.R | 7 R/pipeline-lpfilt.R | 7 R/pipeline-zscore.R | 7 R/plot.eyeris.R | 220 +++++++++++++-- R/utils-boilerplate.R |only R/utils-database.R | 75 +++++ R/utils-gallery.R | 19 + R/utils-parsers.R | 7 R/utils-render_report.R | 321 ++++++++++++++++++++--- R/utils-zip-cleanup.R | 8 R/utils-zip-gallery.R | 4 README.md | 64 +++- inst/WORDLIST | 12 inst/doc/anatomy.R | 6 inst/doc/anatomy.Rmd | 36 ++ inst/doc/anatomy.html | 89 ++++++ inst/doc/complete-pipeline.R | 32 ++ inst/doc/complete-pipeline.Rmd | 80 +++++ inst/doc/complete-pipeline.html | 189 +++++++++---- inst/doc/database-guide.R | 27 + inst/doc/database-guide.Rmd | 37 ++ inst/doc/database-guide.html | 70 +++-- inst/doc/epoching-bids-reports.Rmd | 10 inst/doc/epoching-bids-reports.html | 60 ++-- inst/doc/reports.Rmd | 18 - inst/doc/reports.html | 20 - man/bin.Rd | 7 man/boilerplate.Rd |only man/boilerplate_license_note.Rd |only man/bp_num.Rd |only man/build_boilerplate_md.Rd |only man/compute_run_data_loss.Rd |only man/create_epoch_images_zip.Rd | 3 man/deblink.Rd | 7 man/describe_boilerplate_step.Rd |only man/describe_boilerplate_steps.Rd |only man/detransient.Rd | 7 man/detrend.Rd | 7 man/downsample.Rd | 7 man/filter_task_run_dirs.Rd |only man/get_confounds_for_step.Rd | 13 man/get_pre_decimation_block.Rd |only man/interpolate.Rd | 7 man/is_decimated_col.Rd |only man/load_asc.Rd | 7 man/lpfilt.Rd | 7 man/make_prog_summary_plot.Rd | 11 man/make_run_dir_name.Rd |only man/print.eyeris_boilerplate.Rd |only man/print_plots.Rd | 6 man/run_dir_pattern.Rd |only man/save_detrend_plots.Rd | 3 man/save_progressive_summary_plots.Rd | 3 man/slice_epoch_window.Rd |only man/summarize_confounds.Rd | 18 + man/trim_pre_decimation_cols.Rd |only man/zscore.Rd | 7 tests/testthat/test-bidsify-task-run-collision.R |only tests/testthat/test-bin.R | 41 ++ tests/testthat/test-boilerplate.R |only tests/testthat/test-compute_run_data_loss.R |only tests/testthat/test-confounds.R |only tests/testthat/test-database.R | 150 ++++++++++ tests/testthat/test-downsample.R | 69 ++++ tests/testthat/test-plot-distribution.R |only vignettes/anatomy.Rmd | 36 ++ vignettes/complete-pipeline.Rmd | 80 +++++ vignettes/database-guide.Rmd | 37 ++ vignettes/epoching-bids-reports.Rmd | 10 vignettes/reports.Rmd | 18 - 84 files changed, 2024 insertions(+), 381 deletions(-)
Title: Crafting Print-Ready Maps and Layered Visualizations
Description: Simplifying the creation of print-ready maps, this package offers a user-friendly interface derived from 'ggplot2' for handling OpenStreetMap data. It streamlines the map-making process, allowing users to focus on the story their maps tell. Transforming raw geospatial data into informative visualizations is made easy with simple features 'sf' geometries. Whether for urban planning, environmental studies, or impactful public presentations, this tool facilitates straightforward and effective map creation. Enhance the dissemination of spatial information with high-quality, narrative-driven visualizations!
Author: David Willinger [aut, cre, cph]
Maintainer: David Willinger <david.willinger@gmail.com>
Diff between cartographr versions 0.2.4 dated 2025-09-18 and 0.2.5 dated 2026-06-19
DESCRIPTION | 8 MD5 | 74 - NAMESPACE | 42 NEWS.md | 74 - R/cartographr.R | 1690 ++++++++++++++++++-------------------- R/data.R | 66 - R/palette.R | 702 +++++++-------- R/set.R | 282 +++--- R/theme.R | 234 ++--- R/utils.R | 575 ++++++------ R/zzz.R | 30 README.md | 298 +++--- build/vignette.rds |binary inst/doc/cartographr.R | 98 +- inst/doc/cartographr.Rmd | 198 ++-- inst/doc/cartographr.html | 840 +++++++++--------- man/crime.Rd | 40 man/crop.Rd | 72 - man/dot-make_border_ring.Rd | 36 man/get_osmdata.Rd | 160 +-- man/get_palette.Rd | 168 +-- man/osm.Rd | 48 - man/plot_map.Rd | 56 - man/preprocess_map.Rd | 82 - man/print_config.Rd | 38 man/save_map.Rd | 62 - man/set_attribution.Rd | 50 - man/set_output_size.Rd | 46 - man/soho_boundary.Rd | 50 - man/theme_infomap.Rd | 76 - man/theme_poster.Rd | 76 - tests/testthat.R | 24 tests/testthat/test-cartographr.R | 286 +++--- tests/testthat/test-palette.R | 72 - tests/testthat/test-set.R | 160 +-- tests/testthat/test-theme.R | 28 tests/testthat/test-utils.R | 82 - vignettes/cartographr.Rmd | 198 ++-- 38 files changed, 3560 insertions(+), 3561 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-03-05 1.1.2
2024-12-09 1.0.0
2024-10-25 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-24 1.0.2
Title: Stable Diffusion Image Generation
Description: Provides Stable Diffusion image generation using the 'ggmlR'
library, with no 'Python' or external API dependencies. Supports
text-to-image and image-to-image generation for SD 1.x, SD 2.x, 'SDXL',
Flux, and 'FLUX.2'. A single sd_generate() function handles the entire pipeline,
including sampling and high-resolution output. Features multi-GPU support,
a 'Shiny' GUI, and runs on CPU or 'Vulkan' GPU across Linux, macOS, and
Windows.
Author: Yuri Baramykov [aut, cre] ,
Georgi Gerganov [ctb, cph] ,
leejet [ctb, cph] ,
stduhpf [ctb] ,
Green-Sky [ctb] ,
wbruna [ctb] ,
akleine [ctb] ,
Martin Raiber [cph] ,
Rich Geldreich [cph] ,
RAD Game Tools [cph] ,
Valve Software [cph] ,
Alex Evans [cph] [...truncated...]
Maintainer: Yuri Baramykov <lbsbmsu@mail.ru>
Diff between sd2R versions 0.1.9 dated 2026-04-09 and 0.2.1 dated 2026-06-19
sd2R-0.1.9/sd2R/src/sd/common.hpp |only sd2R-0.1.9/sd2R/src/sd/gguf_reader.hpp |only sd2R-0.1.9/sd2R/src/sd/tokenize_util.cpp |only sd2R-0.1.9/sd2R/src/sd/tokenize_util.h |only sd2R-0.2.1/sd2R/DESCRIPTION | 44 sd2R-0.2.1/sd2R/MD5 | 278 sd2R-0.2.1/sd2R/NAMESPACE | 22 sd2R-0.2.1/sd2R/NEWS.md | 23 sd2R-0.2.1/sd2R/R/RcppExports.R | 68 sd2R-0.2.1/sd2R/R/app.R | 20 sd2R-0.2.1/sd2R/R/image_utils.R | 75 sd2R-0.2.1/sd2R/R/kaggle.R |only sd2R-0.2.1/sd2R/R/lowlevel.R |only sd2R-0.2.1/sd2R/R/model_manager.R | 207 sd2R-0.2.1/sd2R/R/params.R |only sd2R-0.2.1/sd2R/R/pipeline.R | 504 sd2R-0.2.1/sd2R/R/preview.R |only sd2R-0.2.1/sd2R/R/sd2R-package.R | 1 sd2R-0.2.1/sd2R/R/zzz.R | 88 sd2R-0.2.1/sd2R/README.md | 133 sd2R-0.2.1/sd2R/cleanup | 9 sd2R-0.2.1/sd2R/cleanup.win | 8 sd2R-0.2.1/sd2R/configure | 106 sd2R-0.2.1/sd2R/configure.win | 142 sd2R-0.2.1/sd2R/inst/examples/meta_backend_poc_encoder.R |only sd2R-0.2.1/sd2R/inst/examples/meta_backend_smoke.R |only sd2R-0.2.1/sd2R/inst/examples/test_fa_probe.R |only sd2R-0.2.1/sd2R/inst/examples/test_flux_encoders_cpu.R |only sd2R-0.2.1/sd2R/inst/examples/test_flux_full_cpu.R |only sd2R-0.2.1/sd2R/inst/examples/test_flux_preview_steps.R |only sd2R-0.2.1/sd2R/inst/examples/test_flux_t5q3.R |only sd2R-0.2.1/sd2R/inst/examples/test_generate_flux.R | 151 sd2R-0.2.1/sd2R/inst/examples/test_generate_flux2.R |only sd2R-0.2.1/sd2R/inst/examples/test_generate_flux2_kaggle.R |only sd2R-0.2.1/sd2R/inst/examples/test_generate_flux_quick.R |only sd2R-0.2.1/sd2R/inst/examples/test_generate_flux_single.R |only sd2R-0.2.1/sd2R/inst/examples/test_inpaint_flux.R |only sd2R-0.2.1/sd2R/inst/examples/test_inpaint_flux2.R |only sd2R-0.2.1/sd2R/inst/examples/test_inpaint_quick.R |only sd2R-0.2.1/sd2R/inst/examples/test_meta_backend.cpp |only sd2R-0.2.1/sd2R/inst/examples/test_sampling_profile.R |only sd2R-0.2.1/sd2R/inst/examples/test_t5_profile.R |only sd2R-0.2.1/sd2R/inst/examples/test_vae_f16.R |only sd2R-0.2.1/sd2R/inst/examples/test_vk_upload_debug.R |only sd2R-0.2.1/sd2R/inst/examples/test_vram_roundtrip.R |only sd2R-0.2.1/sd2R/inst/shiny/sd2R_app/app.R | 865 + sd2R-0.2.1/sd2R/man/PREVIEW.Rd |only sd2R-0.2.1/sd2R/man/SAMPLE_METHOD.Rd | 2 sd2R-0.2.1/sd2R/man/SCHEDULER.Rd | 2 sd2R-0.2.1/sd2R/man/SD_TYPE.Rd | 2 sd2R-0.2.1/sd2R/man/dot-detect_model_type_config.Rd |only sd2R-0.2.1/sd2R/man/dot-detect_model_type_gguf.Rd |only sd2R-0.2.1/sd2R/man/dot-estimate_vae_vram.Rd | 12 sd2R-0.2.1/sd2R/man/dot-guess_model_type.Rd | 2 sd2R-0.2.1/sd2R/man/dot-native_latent_tile_size.Rd | 2 sd2R-0.2.1/sd2R/man/dot-native_tile_size.Rd | 2 sd2R-0.2.1/sd2R/man/dot-resolve_model_type.Rd |only sd2R-0.2.1/sd2R/man/dot-sd_generate_plan.Rd |only sd2R-0.2.1/sd2R/man/sd_ctx.Rd | 69 sd2R-0.2.1/sd2R/man/sd_decode_latent.Rd |only sd2R-0.2.1/sd2R/man/sd_default_params.Rd |only sd2R-0.2.1/sd2R/man/sd_denoise_step.Rd |only sd2R-0.2.1/sd2R/man/sd_destroy_context.Rd |only sd2R-0.2.1/sd2R/man/sd_download_model.Rd |only sd2R-0.2.1/sd2R/man/sd_encode_image.Rd |only sd2R-0.2.1/sd2R/man/sd_encode_text.Rd |only sd2R-0.2.1/sd2R/man/sd_generate.Rd | 29 sd2R-0.2.1/sd2R/man/sd_generate_multi_gpu.Rd | 3 sd2R-0.2.1/sd2R/man/sd_generate_multiref.Rd |only sd2R-0.2.1/sd2R/man/sd_highres_fix.Rd | 5 sd2R-0.2.1/sd2R/man/sd_img2img.Rd | 12 sd2R-0.2.1/sd2R/man/sd_img2img_tiled.Rd | 5 sd2R-0.2.1/sd2R/man/sd_inverse_noise_scale.Rd |only sd2R-0.2.1/sd2R/man/sd_load_mask.Rd |only sd2R-0.2.1/sd2R/man/sd_load_model.Rd | 10 sd2R-0.2.1/sd2R/man/sd_noise_scale.Rd |only sd2R-0.2.1/sd2R/man/sd_preview_start.Rd |only sd2R-0.2.1/sd2R/man/sd_preview_stop.Rd |only sd2R-0.2.1/sd2R/man/sd_read_preview.Rd |only sd2R-0.2.1/sd2R/man/sd_register_model.Rd | 2 sd2R-0.2.1/sd2R/man/sd_sample.Rd |only sd2R-0.2.1/sd2R/man/sd_sample_stepwise.Rd |only sd2R-0.2.1/sd2R/man/sd_sampler_sigmas.Rd |only sd2R-0.2.1/sd2R/man/sd_sampler_window.Rd |only sd2R-0.2.1/sd2R/man/sd_supports_ref_images.Rd |only sd2R-0.2.1/sd2R/man/sd_txt2img.Rd | 5 sd2R-0.2.1/sd2R/man/sd_txt2img_tiled.Rd | 5 sd2R-0.2.1/sd2R/src/Makevars.in | 56 sd2R-0.2.1/sd2R/src/Makevars.win.in | 70 sd2R-0.2.1/sd2R/src/RcppExports.cpp | 233 sd2R-0.2.1/sd2R/src/sd/anima.hpp |only sd2R-0.2.1/sd2R/src/sd/auto_encoder_kl.hpp |only sd2R-0.2.1/sd2R/src/sd/cache_dit.hpp | 133 sd2R-0.2.1/sd2R/src/sd/clip.hpp | 606 - sd2R-0.2.1/sd2R/src/sd/common_block.hpp |only sd2R-0.2.1/sd2R/src/sd/common_dit.hpp |only sd2R-0.2.1/sd2R/src/sd/condition_cache_utils.hpp |only sd2R-0.2.1/sd2R/src/sd/conditioner.hpp | 2047 ++- sd2R-0.2.1/sd2R/src/sd/control.hpp | 161 sd2R-0.2.1/sd2R/src/sd/convert.cpp |only sd2R-0.2.1/sd2R/src/sd/denoiser.hpp | 2179 ++-- sd2R-0.2.1/sd2R/src/sd/diffusion_model.hpp | 531 sd2R-0.2.1/sd2R/src/sd/easycache.hpp | 70 sd2R-0.2.1/sd2R/src/sd/ernie_image.hpp |only sd2R-0.2.1/sd2R/src/sd/esrgan.hpp | 51 sd2R-0.2.1/sd2R/src/sd/flux.hpp | 540 sd2R-0.2.1/sd2R/src/sd/ggml_extend.hpp | 2877 ++++- sd2R-0.2.1/sd2R/src/sd/ggml_extend_backend.cpp |only sd2R-0.2.1/sd2R/src/sd/ggml_extend_backend.h |only sd2R-0.2.1/sd2R/src/sd/ggml_graph_cut.cpp |only sd2R-0.2.1/sd2R/src/sd/ggml_graph_cut.h |only sd2R-0.2.1/sd2R/src/sd/guidance.cpp |only sd2R-0.2.1/sd2R/src/sd/guidance.h |only sd2R-0.2.1/sd2R/src/sd/hidream_o1.hpp |only sd2R-0.2.1/sd2R/src/sd/latent-preview.h | 202 sd2R-0.2.1/sd2R/src/sd/layer_registry.cpp |only sd2R-0.2.1/sd2R/src/sd/layer_registry.h |only sd2R-0.2.1/sd2R/src/sd/lens.hpp |only sd2R-0.2.1/sd2R/src/sd/llm.hpp | 2255 ++-- sd2R-0.2.1/sd2R/src/sd/lora.hpp | 228 sd2R-0.2.1/sd2R/src/sd/ltx_audio_vae.h |only sd2R-0.2.1/sd2R/src/sd/ltx_latent_upscaler.hpp |only sd2R-0.2.1/sd2R/src/sd/ltx_vae.hpp |only sd2R-0.2.1/sd2R/src/sd/ltxv.hpp | 2085 +++ sd2R-0.2.1/sd2R/src/sd/mmdit.hpp | 288 sd2R-0.2.1/sd2R/src/sd/model.cpp | 1334 -- sd2R-0.2.1/sd2R/src/sd/model.h | 226 sd2R-0.2.1/sd2R/src/sd/model_io |only sd2R-0.2.1/sd2R/src/sd/ordered_map.hpp | 2 sd2R-0.2.1/sd2R/src/sd/pid.hpp |only sd2R-0.2.1/sd2R/src/sd/pmid.hpp | 248 sd2R-0.2.1/sd2R/src/sd/preprocessing.hpp | 414 sd2R-0.2.1/sd2R/src/sd/qwen_image.hpp | 286 sd2R-0.2.1/sd2R/src/sd/rope.hpp | 295 sd2R-0.2.1/sd2R/src/sd/sample-cache.cpp |only sd2R-0.2.1/sd2R/src/sd/sample-cache.h |only sd2R-0.2.1/sd2R/src/sd/sd2r_meta_backend.hpp |only sd2R-0.2.1/sd2R/src/sd/spectrum.hpp |only sd2R-0.2.1/sd2R/src/sd/stable-diffusion.cpp | 7046 ++++++++----- sd2R-0.2.1/sd2R/src/sd/stable-diffusion.h | 238 sd2R-0.2.1/sd2R/src/sd/t5.hpp | 633 - sd2R-0.2.1/sd2R/src/sd/tae.hpp | 346 sd2R-0.2.1/sd2R/src/sd/tensor.hpp |only sd2R-0.2.1/sd2R/src/sd/tensor_ggml.hpp |only sd2R-0.2.1/sd2R/src/sd/tokenizers |only sd2R-0.2.1/sd2R/src/sd/ucache.hpp | 123 sd2R-0.2.1/sd2R/src/sd/unet.hpp | 214 sd2R-0.2.1/sd2R/src/sd/upscaler.cpp | 239 sd2R-0.2.1/sd2R/src/sd/upscaler.h |only sd2R-0.2.1/sd2R/src/sd/util.cpp | 828 + sd2R-0.2.1/sd2R/src/sd/util.h | 39 sd2R-0.2.1/sd2R/src/sd/vae.hpp | 936 - sd2R-0.2.1/sd2R/src/sd/wan.hpp | 658 - sd2R-0.2.1/sd2R/src/sd/z_image.hpp | 288 sd2R-0.2.1/sd2R/src/sd2R_interface.cpp | 557 - sd2R-0.2.1/sd2R/tests/testthat.R | 35 sd2R-0.2.1/sd2R/tests/testthat/_problems |only sd2R-0.2.1/sd2R/tests/testthat/test-app.R | 9 sd2R-0.2.1/sd2R/tests/testthat/test-full-coverage.R | 2 sd2R-0.2.1/sd2R/tests/testthat/test-generate-plan.R |only sd2R-0.2.1/sd2R/tests/testthat/test-lowlevel.R |only sd2R-0.2.1/sd2R/tests/testthat/test-mask.R |only sd2R-0.2.1/sd2R/tests/testthat/test-params.R |only sd2R-0.2.1/sd2R/tests/testthat/test-preview.R |only sd2R-0.2.1/sd2R/tests/testthat/test-utils.R | 4 sd2R-0.2.1/sd2R/tests/testthat/test-vae-tiling.R | 10 sd2R-0.2.1/sd2R/tests/testthat/test-vram-manager.R |only 167 files changed, 20417 insertions(+), 12118 deletions(-)
Title: Creation of Mock Observational Medical Outcomes Partnership
Common Data Model
Description: Creates mock data for testing and package development for the
Observational Medical Outcomes Partnership common data model. The
package offers functions crafted with pipeline-friendly
implementation, enabling users to effortlessly include only the
necessary tables for their testing needs.
Author: Mike Du [aut, cre] ,
Marti Catala [aut] ,
Edward Burn [aut] ,
Nuria Mercade-Besora [aut] ,
Xihang Chen [aut]
Maintainer: Mike Du <mike.du@ndorms.ox.ac.uk>
Diff between omock versions 0.6.2 dated 2026-03-23 and 0.7.0 dated 2026-06-19
omock-0.6.2/omock/tests/testthat/test-mockCondtitionOccurrence.R |only omock-0.6.2/omock/vignettes/a01_Creating_synthetic_clinical_tables.R |only omock-0.6.2/omock/vignettes/a01_Creating_synthetic_clinical_tables.html |only omock-0.6.2/omock/vignettes/a02_Creating_synthetic_cohorts.R |only omock-0.6.2/omock/vignettes/a02_Creating_synthetic_cohorts.html |only omock-0.6.2/omock/vignettes/a03_Creating_a_synthetic_vocabulary.R |only omock-0.6.2/omock/vignettes/a03_Creating_a_synthetic_vocabulary.html |only omock-0.6.2/omock/vignettes/a04_Building_a_bespoke_mock_cdm.R |only omock-0.6.2/omock/vignettes/a04_Building_a_bespoke_mock_cdm.html |only omock-0.7.0/omock/DESCRIPTION | 8 omock-0.7.0/omock/MD5 | 126 +-- omock-0.7.0/omock/NAMESPACE | 1 omock-0.7.0/omock/NEWS.md | 148 ++-- omock-0.7.0/omock/R/changeCdmVersion.R | 292 ++++---- omock-0.7.0/omock/R/mockCdmFromTables.R | 60 + omock-0.7.0/omock/R/mockCdmReference.R | 16 omock-0.7.0/omock/R/mockCohort.R | 36 omock-0.7.0/omock/R/mockConcept.R | 44 - omock-0.7.0/omock/R/mockConditionOccurrence.R | 74 -- omock-0.7.0/omock/R/mockDatasets.R | 164 ++-- omock-0.7.0/omock/R/mockDeath.R | 19 omock-0.7.0/omock/R/mockDrugExposure.R | 14 omock-0.7.0/omock/R/mockMeasurement.R | 27 omock-0.7.0/omock/R/mockObservation.R | 14 omock-0.7.0/omock/R/mockObservationPeriod.R | 111 +-- omock-0.7.0/omock/R/mockPerson.R | 12 omock-0.7.0/omock/R/mockProcedureOccurrence.R | 20 omock-0.7.0/omock/R/mockVisitOccurrence.R | 7 omock-0.7.0/omock/R/mockVocabulary.R | 29 omock-0.7.0/omock/R/mockVocabularySet.R | 32 omock-0.7.0/omock/R/sysdata.rda |binary omock-0.7.0/omock/R/vocabularySubset.R |only omock-0.7.0/omock/README.md | 8 omock-0.7.0/omock/build/vignette.rds |binary omock-0.7.0/omock/data/mockDatasets.rda |binary omock-0.7.0/omock/inst/doc/mock_from_tables.html | 43 - omock-0.7.0/omock/inst/doc/subset_concepts.R |only omock-0.7.0/omock/inst/doc/subset_concepts.Rmd |only omock-0.7.0/omock/inst/doc/subset_concepts.html |only omock-0.7.0/omock/inst/doc/synthetic_clinical_tables.html | 14 omock-0.7.0/omock/inst/doc/synthetic_datasets.html | 141 +-- omock-0.7.0/omock/man/downloadMockDataset.Rd | 3 omock-0.7.0/omock/man/isMockDatasetDownloaded.Rd | 3 omock-0.7.0/omock/man/mockCdmFromDataset.Rd | 13 omock-0.7.0/omock/man/mockCdmFromTables.Rd | 10 omock-0.7.0/omock/man/mockCdmReference.Rd | 14 omock-0.7.0/omock/man/mockCohort.Rd | 12 omock-0.7.0/omock/man/mockConcepts.Rd | 24 omock-0.7.0/omock/man/mockConditionOccurrence.Rd | 29 omock-0.7.0/omock/man/mockDeath.Rd | 17 omock-0.7.0/omock/man/mockDrugExposure.Rd | 12 omock-0.7.0/omock/man/mockMeasurement.Rd | 12 omock-0.7.0/omock/man/mockObservation.Rd | 12 omock-0.7.0/omock/man/mockObservationPeriod.Rd | 11 omock-0.7.0/omock/man/mockPerson.Rd | 12 omock-0.7.0/omock/man/mockProcedureOccurrence.Rd | 18 omock-0.7.0/omock/man/mockVisitOccurrence.Rd | 7 omock-0.7.0/omock/man/mockVocabularySet.Rd | 24 omock-0.7.0/omock/man/mockVocabularyTables.Rd | 24 omock-0.7.0/omock/man/subsetVocabularyTables.Rd |only omock-0.7.0/omock/tests/testthat/test-changeCdmVersion.R | 60 + omock-0.7.0/omock/tests/testthat/test-mockCdmFromTables.R | 63 - omock-0.7.0/omock/tests/testthat/test-mockCdmReference.R | 11 omock-0.7.0/omock/tests/testthat/test-mockCohort.R | 31 omock-0.7.0/omock/tests/testthat/test-mockConcepts.R | 34 omock-0.7.0/omock/tests/testthat/test-mockConditionOccurrence.R |only omock-0.7.0/omock/tests/testthat/test-mockDatasets.R | 75 +- omock-0.7.0/omock/tests/testthat/test-mockMeasurement.R | 27 omock-0.7.0/omock/tests/testthat/test-mockObservationPeriod.R | 11 omock-0.7.0/omock/tests/testthat/test-mockVocabularySet.R | 17 omock-0.7.0/omock/tests/testthat/test-mockVocabularyTables.R | 362 +++++++++- omock-0.7.0/omock/vignettes/subset_concepts.Rmd |only 72 files changed, 1520 insertions(+), 888 deletions(-)
Title: Representation for Glycan Compositions and Structures
Description: Computational representations of glycan compositions and structures,
including details such as linkages, anomers, and substituents. Supports varying
levels of monosaccharide specificity (e.g., "Hex" or "Gal") and ambiguous linkages.
Provides robust parsing and generation of IUPAC-condensed structure strings.
Optimized for vectorized operations on glycan structures, with efficient handling
of duplications. As the cornerstone of the glycoverse ecosystem, this package
delivers the foundational data structures that power glycomics and glycoproteomics
analysis workflows.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glyrepr versions 0.12.0 dated 2026-05-14 and 0.12.1 dated 2026-06-19
DESCRIPTION | 8 MD5 | 22 - NEWS.md | 9 R/reorder-graph.R | 20 - R/structure-to-iupac.R | 232 ++++++------- R/structure.R | 82 ++-- README.md | 20 - build/vignette.rds |binary inst/doc/glycan-graph.html | 321 +++++++++++------- inst/doc/glyrepr.html | 778 +++++++++++++++++++++++++-------------------- inst/doc/smap.html | 618 +++++++++++++++++++---------------- man/glyrepr-package.Rd | 5 12 files changed, 1172 insertions(+), 943 deletions(-)
Title: DBI Package for the DuckDB Database Management System
Description: The DuckDB project is an embedded analytical data management
system with support for the Structured Query Language (SQL). This
package includes all of DuckDB and an R Database Interface (DBI)
connector.
Author: Hannes Muehleisen [aut] ,
Mark Raasveldt [aut] ,
Kirill Mueller [cre] ,
Stichting DuckDB Foundation [cph],
Apache Software Foundation [cph],
PostgreSQL Global Development Group [cph],
The Regents of the University of California [cph],
Cameron Desrocher [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between duckdb versions 1.5.2 dated 2026-04-13 and 1.5.4 dated 2026-06-19
DESCRIPTION | 19 MD5 | 126 +- NAMESPACE | 6 NEWS.md | 56 + R/Driver.R | 29 R/Result.R | 44 R/backend-dbplyr__duckdb_connection.R | 10 R/convert.R | 21 R/cpp11.R | 12 R/cran-guard.R |only R/dbAppendTable__duckdb_connection.R | 37 R/dbBind__duckdb_result_arrow.R |only R/dbClearResult__duckdb_result_arrow.R |only R/dbColumnInfo__duckdb_result_arrow.R |only R/dbConnect__duckdb_driver.R | 15 R/dbDataType__duckdb_driver.R | 22 R/dbFetchArrow__duckdb_result_arrow.R |only R/dbGetRowCount__duckdb_result_arrow.R |only R/dbGetRowsAffected__duckdb_result_arrow.R |only R/dbGetStatement__duckdb_result_arrow.R |only R/dbHasCompleted__duckdb_result_arrow.R |only R/dbIsValid__duckdb_result_arrow.R |only R/dbSendQueryArrow__duckdb_connection_character.R |only R/dbWriteTable__duckdb_connection_character_data.frame.R | 30 R/extensions.R | 297 +++++- R/package.R | 8 R/register.R | 2 R/relational.R | 33 R/rethrow-gen.R | 24 R/show__duckdb_result_arrow.R |only R/sql.R | 4 R/version.R | 2 R/zzz.R | 9 man/default_conn.Rd | 2 man/duckdb.Rd | 15 man/duckdb_connection-class.Rd | 5 man/duckdb_consolidate_secrets.Rd |only man/duckdb_register.Rd | 2 man/duckdb_result_arrow-class.Rd |only man/sql_query.Rd | 2 src/convert.cpp | 18 src/cpp11.cpp | 25 src/database.cpp | 4 src/duckdb.tar.xz |binary src/include/convert.hpp | 13 src/include/rapi.hpp | 25 src/include/reltoaltrep.hpp | 1 src/include/sources.mk | 2 src/include/typesr.hpp | 4 src/register.cpp | 43 src/relational.cpp | 25 src/reltoaltrep.cpp | 22 src/scan.cpp | 152 +++ src/statement.cpp | 118 ++ src/transform.cpp | 64 + src/types.cpp | 2 src/utils.cpp | 79 - tests/testthat.R | 46 tests/testthat/_snaps/map.md |only tests/testthat/_snaps/secret_directory.md |only tests/testthat/_snaps/types.md | 12 tests/testthat/data/time_tz.parquet |only tests/testthat/helper-skip.R | 10 tests/testthat/test-backend-dbplyr__duckdb_connection.R | 58 + tests/testthat/test-dbBindArrow.R |only tests/testthat/test-dbFetchArrow.R |only tests/testthat/test-dbSendQueryArrow.R |only tests/testthat/test-extension_path.R | 8 tests/testthat/test-map.R | 727 +++++++++++++++ tests/testthat/test-parquet.R | 21 tests/testthat/test-relational.R | 166 +++ tests/testthat/test-secret_directory.R |only tests/testthat/test-timestamp.R | 18 tests/testthat/test-types.R | 1 tests/testthat/test-variant.R |only 75 files changed, 2267 insertions(+), 229 deletions(-)
Title: Access, Retrieve, and Work with Canadian Census Data and
Geography
Description: Integrated, convenient, and uniform access to Canadian
Census data and geography retrieved using the 'CensusMapper' API. This package produces analysis-ready
tidy data frames and spatial data in multiple formats, as well as convenience functions
for working with Census variables, variable hierarchies, and region selection. API
keys are freely available with free registration at <https://censusmapper.ca/api>.
Census data and boundary geometries are reproduced and distributed on an "as
is" basis with the permission of Statistics Canada (Statistics Canada 1996; 2001; 2006;
2011; 2016; 2021).
Author: Jens von Bergmann [aut] ,
Dmitry Shkolnik [aut, cre] ,
Aaron Jacobs [aut]
Maintainer: Dmitry Shkolnik <shkolnikd@gmail.com>
Diff between cancensus versions 0.6.0 dated 2026-04-14 and 0.6.1 dated 2026-06-19
DESCRIPTION | 8 MD5 | 50 ++-- NEWS.md | 29 ++ R/cancensus.R | 44 ---- R/cancensus_cache.R | 6 R/census_regions.R | 19 + R/census_vectors.R | 77 +++---- R/geographies.R | 9 R/helpers.R | 50 +++- R/recalled_data.R | 11 - R/user_settings.R | 6 R/vector_discovery.R | 62 ++++- R/vector_viz.R | 17 + R/wds.R | 17 + README.md | 12 - inst/doc/Making_maps_with_cancensus.html | 341 ++++++++++++------------------- inst/doc/Taxfiler_Data.Rmd | 2 inst/doc/Taxfiler_Data.html | 50 ++-- inst/doc/cancensus.Rmd | 2 inst/doc/cancensus.html | 56 +++-- inst/doc/data_discovery.html | 69 +++--- inst/doc/intersecting_geometries.html | 6 man/explore_census_regions.Rd | 2 man/explore_census_vectors.Rd | 4 vignettes/Taxfiler_Data.Rmd | 2 vignettes/cancensus.Rmd | 2 26 files changed, 495 insertions(+), 458 deletions(-)
Title: Supporting Functions for Packages Maintained by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] ,
Wush Wu [ctb],
Daijiang Li [ctb],
Xianying Tan [ctb],
Salim Brueggemann [ctb] ,
Christophe Dervieux [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.58 dated 2026-06-01 and 0.59 dated 2026-06-19
xfun-0.58/xfun/tests/test-ci.R |only xfun-0.58/xfun/tests/test-cran.R |only xfun-0.59/xfun/DESCRIPTION | 6 - xfun-0.59/xfun/MD5 | 43 +++++----- xfun-0.59/xfun/NAMESPACE | 1 xfun-0.59/xfun/R/command.R | 27 +++--- xfun-0.59/xfun/R/github.R | 105 ++++++++++++++++++++++--- xfun-0.59/xfun/R/httpd.R | 4 xfun-0.59/xfun/R/json.R | 1 xfun-0.59/xfun/R/markdown.R | 22 +++-- xfun-0.59/xfun/R/revcheck.R | 8 - xfun-0.59/xfun/R/yaml.R | 2 xfun-0.59/xfun/inst/doc/xfun.html | 8 - xfun-0.59/xfun/man/embed_file.Rd | 3 xfun-0.59/xfun/man/post_release.Rd |only xfun-0.59/xfun/man/system3.Rd | 19 ++-- xfun-0.59/xfun/tests/test-all.R |only xfun-0.59/xfun/tests/test-ci/test-session.R |only xfun-0.59/xfun/tests/test-cran/test-cache.R | 53 ++++++++++++ xfun-0.59/xfun/tests/test-cran/test-github.R |only xfun-0.59/xfun/tests/test-cran/test-json.R | 25 +++++ xfun-0.59/xfun/tests/test-cran/test-markdown.R | 8 + xfun-0.59/xfun/tests/test-cran/test-session.R |only xfun-0.59/xfun/tests/test-cran/test-string.R | 40 +++++++++ xfun-0.59/xfun/tests/test-cran/test-utils.R | 42 ++++++++++ xfun-0.59/xfun/tests/test-cran/test-yaml.R | 18 ++++ 26 files changed, 357 insertions(+), 78 deletions(-)
Title: Run Code 'With' Temporarily Modified Global State
Description: A set of functions to run code 'with' safely and temporarily
modified global state. Many of these functions were originally a part
of the 'devtools' package, this provides a simple package with limited
dependencies to provide access to these functions.
Author: Jim Hester [aut],
Lionel Henry [aut, cre],
Kirill Mueller [aut],
Kevin Ushey [aut],
Hadley Wickham [aut],
Winston Chang [aut],
Jennifer Bryan [ctb],
Richard Cotton [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between withr versions 3.0.2 dated 2024-10-28 and 3.0.3 dated 2026-06-19
DESCRIPTION | 6 +- MD5 | 54 ++++++++++++------------ NEWS.md | 22 ++++++++++ R/collate.R | 4 - R/connection.R | 5 +- R/db.R | 4 + R/devices.R | 2 R/env.R | 8 ++- R/file.R | 1 R/local_.R | 16 ++++--- R/locale.R | 4 - R/makevars.R | 39 +++++++++++++---- R/namespace.R | 89 +++++++++++++++++++++++++++++++---------- R/seed.R | 38 +++++++++++------ R/sink.R | 12 +++-- R/tempfile.R | 69 ++++++++++++++++++++++++------- R/timezone.R | 24 +++++++---- R/utils.R | 31 ++++++++------ R/with.R | 23 +++++----- R/with_.R | 22 +++++----- R/wrap.R | 14 +++--- build/vignette.rds |binary inst/doc/withr.R | 38 ++++++++--------- inst/doc/withr.Rmd | 2 inst/doc/withr.html | 7 +-- tests/testthat/test-language.R | 11 ++++- tests/testthat/test-seed.R | 24 +++++++++++ vignettes/withr.Rmd | 2 28 files changed, 387 insertions(+), 184 deletions(-)
Title: Stock Assessment Methods Toolkit
Description: Simulation tools for closed-loop simulation are provided for the 'MSEtool' operating model to inform data-rich fisheries.
'SAMtool' provides a conditioning model, assessment models of varying complexity with standardized reporting,
model-based management procedures, and diagnostic tools for evaluating assessments inside closed-loop simulation.
Author: Quang Huynh [aut, cre],
Tom Carruthers [aut],
Adrian Hordyk [aut]
Maintainer: Quang Huynh <quang@bluematterscience.com>
Diff between SAMtool versions 1.9.1 dated 2026-01-15 and 1.9.2 dated 2026-06-19
DESCRIPTION | 8 +- MD5 | 52 ++++++++-------- NAMESPACE | 1 NEWS.md | 8 ++ R/RCM2MOM.R | 3 R/RCM_assess.R | 18 +++++ R/RCM_est.R | 4 - R/RCM_rmd.R | 64 ++++++++++---------- R/define_S4_class_RCModel.R | 8 +- R/define_S4_class_profile.R | 2 R/define_S4_class_retro.R | 5 + R/define_S4_generic_simulate.R | 4 - R/diagnostic.R | 2 R/report_DD_TMB.R | 6 - R/report_SCA.R | 12 +-- R/report_SP.R | 6 - R/report_auxiliary.R | 75 ++++++++++++------------ build/partial.rdb |binary inst/include/DD.hpp | 4 - inst/include/RCM.hpp | 127 +++++++++++++++++++++++++---------------- inst/include/SCA.hpp | 2 inst/include/SP.hpp | 2 inst/include/VPA.hpp | 2 inst/include/cDD.hpp | 4 - inst/include/functions.hpp | 4 - man/plot.retro.Rd | 4 - man/simulate.Rd | 6 - 27 files changed, 249 insertions(+), 184 deletions(-)
Title: Truncated Maximum Likelihood Fit and Robust Accelerated Failure
Time Regression for Gaussian and Log-Weibull Case
Description: R functions for the computation of the truncated maximum
likelihood and the robust accelerated failure time regression
for gaussian and log-Weibull case.
Author: Alfio Marazzi [aut],
Jean-Luc Muralti [aut],
Alex Randriamiharisoa [cre]
Maintainer: Alex Randriamiharisoa <exelami@gmail.com>
Diff between RobustAFT versions 1.4-7 dated 2023-08-21 and 1.4-10 dated 2026-06-19
DESCRIPTION | 29 ++++- MD5 | 10 - NAMESPACE | 1 man/RobustAFT-package.Rd | 6 - src/robaft.f | 238 +++++++++++++++++++++++------------------------ src/tmlest.f | 14 +- 6 files changed, 156 insertions(+), 142 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library aiming towards
a good balance between speed and ease of use. It provides high-level syntax and
functionality deliberately similar to Matlab. It is useful for algorithm development
directly in C++, or quick conversion of research code into production environments.
It provides efficient classes for vectors, matrices and cubes where dense and sparse
matrices are supported. Integer, floating point and complex numbers are supported.
A sophisticated expression evaluator (based on template meta-programming) automatically
combines several operations to increase speed and efficiency. Dynamic evaluation
automatically chooses optimal code paths based on detected matrix structures.
Matrix decompositions are provided through integration with LAPACK, or one of its
high performance drop-in replacements (such as 'MKL' or 'OpenBLAS'). It can
automatically use 'OpenMP' multi-threading (parallelisation) to speed up
computationally expensive operations [...truncated...]
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
Doug Bates [aut] ,
Binxiang Ni [aut],
Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 15.2.7-1 dated 2026-05-29 and 15.4.0-1 dated 2026-06-19
ChangeLog | 18 DESCRIPTION | 8 MD5 | 200 ++-- configure | 18 configure.ac | 2 inst/NEWS.Rd | 15 inst/include/armadillo | 2 inst/include/armadillo_bits/Col_bones.hpp | 10 inst/include/armadillo_bits/Col_meat.hpp | 77 - inst/include/armadillo_bits/CubeToMatOp_bones.hpp | 2 inst/include/armadillo_bits/Cube_bones.hpp | 2 inst/include/armadillo_bits/Cube_meat.hpp | 31 inst/include/armadillo_bits/GenCube_bones.hpp | 5 inst/include/armadillo_bits/Gen_bones.hpp | 2 inst/include/armadillo_bits/GlueCube_bones.hpp | 2 inst/include/armadillo_bits/Glue_bones.hpp | 2 inst/include/armadillo_bits/Mat_bones.hpp | 12 inst/include/armadillo_bits/Mat_meat.hpp | 217 ++++- inst/include/armadillo_bits/OpCube_bones.hpp | 2 inst/include/armadillo_bits/Op_bones.hpp | 2 inst/include/armadillo_bits/Proxy.hpp | 8 inst/include/armadillo_bits/Row_bones.hpp | 10 inst/include/armadillo_bits/Row_meat.hpp | 77 - inst/include/armadillo_bits/SpGlue_bones.hpp | 2 inst/include/armadillo_bits/SpMat_bones.hpp | 2 inst/include/armadillo_bits/SpOp_bones.hpp | 2 inst/include/armadillo_bits/SpSubview_bones.hpp | 6 inst/include/armadillo_bits/SpSubview_col_list_bones.hpp | 2 inst/include/armadillo_bits/SpToDGlue_bones.hpp | 2 inst/include/armadillo_bits/SpToDOp_bones.hpp | 2 inst/include/armadillo_bits/arma_forward.hpp | 9 inst/include/armadillo_bits/arma_version.hpp | 6 inst/include/armadillo_bits/auxlib_meat.hpp | 20 inst/include/armadillo_bits/diagview_bones.hpp | 2 inst/include/armadillo_bits/diskio_meat.hpp | 5 inst/include/armadillo_bits/eglue_core_meat.hpp | 50 - inst/include/armadillo_bits/fn_as_scalar.hpp | 4 inst/include/armadillo_bits/fn_conv_to.hpp | 334 ++++++-- inst/include/armadillo_bits/fn_find.hpp | 8 inst/include/armadillo_bits/fn_inv.hpp | 2 inst/include/armadillo_bits/fn_inv_sympd.hpp | 2 inst/include/armadillo_bits/fn_powext.hpp | 4 inst/include/armadillo_bits/fn_sylvester.hpp | 6 inst/include/armadillo_bits/fn_trimat.hpp | 12 inst/include/armadillo_bits/glue_atan2_meat.hpp | 4 inst/include/armadillo_bits/glue_cor_meat.hpp | 4 inst/include/armadillo_bits/glue_cov_meat.hpp | 4 inst/include/armadillo_bits/glue_max_meat.hpp | 36 inst/include/armadillo_bits/glue_min_meat.hpp | 36 inst/include/armadillo_bits/glue_powext_bones.hpp | 4 inst/include/armadillo_bits/glue_powext_meat.hpp | 4 inst/include/armadillo_bits/glue_times_meat.hpp | 8 inst/include/armadillo_bits/gmm_diag_meat.hpp | 28 inst/include/armadillo_bits/gmm_full_meat.hpp | 22 inst/include/armadillo_bits/mp_misc.hpp | 4 inst/include/armadillo_bits/mtGlueCube_bones.hpp | 2 inst/include/armadillo_bits/mtGlue_bones.hpp | 2 inst/include/armadillo_bits/mtOpCube_bones.hpp | 2 inst/include/armadillo_bits/mtOp_bones.hpp | 2 inst/include/armadillo_bits/mtSpGlue_bones.hpp | 2 inst/include/armadillo_bits/mtSpOp_bones.hpp | 2 inst/include/armadillo_bits/mtSpReduceOp_bones.hpp | 2 inst/include/armadillo_bits/op_clamp_meat.hpp | 4 inst/include/armadillo_bits/op_cor_meat.hpp | 8 inst/include/armadillo_bits/op_cov_meat.hpp | 8 inst/include/armadillo_bits/op_diagmat_meat.hpp | 4 inst/include/armadillo_bits/op_dot_meat.hpp | 4 inst/include/armadillo_bits/op_expmat_meat.hpp | 4 inst/include/armadillo_bits/op_find_aux_bones.hpp |only inst/include/armadillo_bits/op_find_aux_meat.hpp |only inst/include/armadillo_bits/op_find_bones.hpp | 8 inst/include/armadillo_bits/op_find_meat.hpp | 18 inst/include/armadillo_bits/op_flip_meat.hpp | 4 inst/include/armadillo_bits/op_htrans_meat.hpp | 2 inst/include/armadillo_bits/op_logmat_meat.hpp | 4 inst/include/armadillo_bits/op_princomp_meat.hpp | 4 inst/include/armadillo_bits/op_reshape_meat.hpp | 4 inst/include/armadillo_bits/op_resize_meat.hpp | 4 inst/include/armadillo_bits/op_reverse_meat.hpp | 4 inst/include/armadillo_bits/op_shuffle_meat.hpp | 4 inst/include/armadillo_bits/op_sort_meat.hpp | 4 inst/include/armadillo_bits/op_sqrtmat_meat.hpp | 4 inst/include/armadillo_bits/op_strans_meat.hpp | 2 inst/include/armadillo_bits/op_symmat_meat.hpp | 16 inst/include/armadillo_bits/op_trimat_meat.hpp | 10 inst/include/armadillo_bits/op_vectorise_meat.hpp | 4 inst/include/armadillo_bits/sp_auxlib_meat.hpp | 2 inst/include/armadillo_bits/spdiagview_bones.hpp | 2 inst/include/armadillo_bits/spdiagview_meat.hpp | 8 inst/include/armadillo_bits/strip.hpp | 42 + inst/include/armadillo_bits/subview_bones.hpp | 12 inst/include/armadillo_bits/subview_cube_bones.hpp | 2 inst/include/armadillo_bits/subview_cube_each_meat.hpp | 118 +- inst/include/armadillo_bits/subview_cube_meat.hpp | 9 inst/include/armadillo_bits/subview_cube_slices_bones.hpp | 2 inst/include/armadillo_bits/subview_each_meat.hpp | 12 inst/include/armadillo_bits/subview_elem1_bones.hpp | 29 inst/include/armadillo_bits/subview_elem1_meat.hpp | 571 ++++---------- inst/include/armadillo_bits/subview_elem2_bones.hpp | 32 inst/include/armadillo_bits/subview_elem2_meat.hpp | 303 ------- inst/include/armadillo_bits/subview_meat.hpp | 4 inst/include/armadillo_bits/unwrap.hpp | 93 +- 102 files changed, 1456 insertions(+), 1287 deletions(-)
Title: Utilities for Working with NEON Data
Description: NEON data packages can be accessed through the NEON Data Portal <https://www.neonscience.org>
or through the NEON Data API (see <https://data.neonscience.org/data-api> for documentation). Data delivered from
the Data Portal are provided as monthly zip files packaged within a parent zip file, while individual files
can be accessed from the API. This package provides tools that aid in discovering, downloading, and reformatting
data prior to use in analyses. This includes downloading data via the API, merging data tables by type, and
converting formats. For more information, see the readme file at <https://github.com/NEONScience/NEON-utilities>.
Author: Claire Lunch [aut, cre, ctb],
Christine Laney [aut, ctb],
Nathan Mietkiewicz [aut, ctb],
Eric Sokol [aut, ctb],
Kaelin Cawley [aut, ctb],
NEON [aut]
Maintainer: Claire Lunch <clunch@battelleecology.org>
Diff between neonUtilities versions 3.0.3 dated 2026-01-23 and 4.0.0 dated 2026-06-19
DESCRIPTION | 12 ++-- MD5 | 63 +++++++++++++---------- NAMESPACE | 2 NEWS.md | 10 +++ R/byEventSIM.R | 27 ++++------ R/byFileAOP.R | 18 ++++++ R/byTileAOP.R | 18 ++++++ R/datasetQuery.R | 116 +++----------------------------------------- R/findTablesByFormat.R | 5 + R/getCitation.R | 2 R/getEddyLog.R | 2 R/getHorVer.R | 2 R/getIssueLog.R | 2 R/getNeonDOI.R | 2 R/getProductInfo.R | 2 R/getProductSensors.R | 2 R/getTimeIndex.R | 2 R/getTitle.R | 2 R/loadByProduct.R | 18 ++++++ R/nu-global.R |only R/queryFiles.R | 54 ++++++++------------ R/schemaAllStringsDuck.R |only R/schemaFromVarDuck.R |only R/stackDataFilesArrow.R | 30 ++++++++--- R/stackDataFilesDuck.R |only R/sysdata.rda |binary R/tokenCheck.R | 2 R/zipsByProduct.R | 24 +++++++-- README.md | 6 ++ data/shared_aquatic.rda |binary data/table_types.rda |binary man/datasetQuery.Rd | 6 +- man/queryFiles.Rd | 2 man/schemaAllStringsDuck.Rd |only man/schemaFromVarDuck.Rd |only man/stackDataFilesDuck.Rd |only 36 files changed, 211 insertions(+), 220 deletions(-)
Title: Harrell Miscellaneous
Description: Contains many functions useful for data
analysis, high-level graphics, utility operations, functions for
computing sample size and power, simulation, importing and annotating datasets,
imputing missing values, advanced table making, variable clustering,
character string manipulation, conversion of R objects to LaTeX and html code,
recoding variables, caching, simplified parallel computing, encrypting and decrypting data using a safe workflow, general moving window statistical estimation, and assistance in interpreting principal component analysis.
Author: Frank E Harrell Jr [aut, cre] ,
Cole Beck [ctb],
Charles Dupont [ctb]
Maintainer: Frank E Harrell Jr <fh@fharrell.com>
Diff between Hmisc versions 5.2-5 dated 2026-01-09 and 5.2-6 dated 2026-06-19
DESCRIPTION | 12 ++--- MD5 | 52 ++++++++++++------------- NEWS | 16 ++++--- R/areg.s | 2 R/bpower.s | 2 R/bpplot.s | 2 R/confbar.s | 4 - R/drawPlot.s | 14 +++--- R/event.chart.s | 2 R/gbayes.s | 2 R/latexDotchart.s | 2 R/movStats.r | 43 ++++++++++----------- R/na.delete.s | 2 R/plotlyM.r | 2 R/qcrypt.r | 102 +++++++++++++++++++++++++++----------------------- R/rcspline.eval.s | 6 +- R/rcspline.plot.s | 2 R/rm.boot.s | 2 R/scat1d.s | 2 R/show.pch.s | 2 R/summary.formula.s | 4 - R/transace.s | 8 +-- R/wtd.stats.s | 2 inst/tests/latexpng.r | 2 man/meltData.Rd | 2 man/qcrypt.Rd | 10 ++-- man/rm.boot.Rd | 48 +++++++++++------------ 27 files changed, 181 insertions(+), 168 deletions(-)
Title: Additional Layout Algorithms for Network Visualizations
Description: Several new layout algorithms to visualize networks are provided which are not part of 'igraph'.
Most are based on the concept of stress majorization by Gansner et al. (2004) <doi:10.1007/978-3-540-31843-9_25>.
Some more specific algorithms allow the user to emphasize hidden group structures in networks or focus on specific nodes.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david@schochastics.net>
Diff between graphlayouts versions 1.2.3 dated 2026-02-21 and 1.2.4 dated 2026-06-19
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/layout_stress.R | 6 +----- tests/testthat/test-stress_majorization.R | 30 ++++++++++++++++++++++++++++++ 5 files changed, 42 insertions(+), 12 deletions(-)
Title: Empirical Likelihood Ratio for Censored/Truncated Data
Description: Empirical likelihood ratio tests and confidence intervals for means/quantiles/hazards
from possibly censored and/or truncated data. In particular, the empirical likelihood
for the Kaplan-Meier/Nelson-Aalen estimator. Now does AFT regression too.
Author: Mai Zhou [aut, cre, cph],
Yifan Yang [aut],
Art Owen [aut]
Maintainer: Mai Zhou <maizhou@gmail.com>
Diff between emplik versions 1.3-2 dated 2024-12-06 and 1.3-3 dated 2026-06-19
DESCRIPTION | 6 +++--- MD5 | 20 +++++++++++--------- NAMESPACE | 2 +- R/WCY.R | 2 +- R/WKM.R | 37 ++++++++++++++++++------------------- R/el.cen.test.R | 2 +- R/el.cen.test2.R |only README | 1 + man/el.cen.EM2.Rd | 23 ++++++++++++++++++----- man/el.cen.test.Rd | 7 ++++--- man/el.cen.test2.Rd |only man/emplik-internal.Rd | 2 +- 12 files changed, 59 insertions(+), 43 deletions(-)
Title: Variance-Guided Regression Improving Upon OLS and ANOVA
Description: Fits variance-guided linear regression models that provide an
alternative to ordinary least squares (OLS) for general linear-model
design matrices, including ANOVA-style encodings. The methods use an
iteratively reweighted least squares estimator or an iteratively reweighted
lasso estimator and implement the global linear mean-variance model from
the associated 2026 Statistics in Medicine article <doi:10.1002/sim.70632>.
Under the assumptions in that
paper, the estimator matches the homoscedastic baseline in population
predictive quasi-risk when variance is constant and improves on it when the
variance depends on covariates. The grouping-based nonlinear prediction
extension from Section 3 is available in the development version on GitHub.
Author: Sibei Liu [aut],
Min Lu [aut, cre]
Maintainer: Min Lu <luminwin@gmail.com>
Diff between varGuid versions 0.1.4 dated 2026-05-29 and 0.1.5 dated 2026-06-18
DESCRIPTION | 28 ++++++++++++++++------------ MD5 | 13 +++++++------ README.md | 8 ++++---- inst |only man/cobra2d.Rd | 11 +++++++++-- man/lmv.Rd | 3 ++- man/prd.Rd | 3 ++- man/varGuid-package.Rd | 22 ++++++++++++---------- 8 files changed, 52 insertions(+), 36 deletions(-)
Title: Calculate Metrics for Trauma System Performance
Description: Hospitals, hospital systems, and even trauma systems that
provide care to injured patients may not be aware of robust metrics
that can help gauge the efficacy of their programs in saving the lives
of injured patients. 'traumar' provides robust functions driven by
the academic literature to automate the calculation of relevant
metrics to individuals desiring to measure the performance of their
trauma center or even a trauma system. 'traumar' also provides some
helper functions for the data analysis journey. Users can refer to the
following publications for descriptions of the methods used in
'traumar'. TRISS methodology, including probability of survival, and
the W, M, and Z Scores - Flora (1978)
<doi:10.1097/00005373-197810000-00003>, Boyd et al. (1987,
PMID:3106646), Llullaku et al. (2009) <doi:10.1186/1749-7922-4-2>,
Singh et al. (2011) <doi:10.4103/0974-2700.86626>, Baker et al. (1974,
PMID:4814394), and Champion et al. (1989)
<doi:10.1097/00005373-198905000- [...truncated...]
Author: Nicolas Foss [aut, cre],
Iowa Department of Health and Human Services [cph]
Maintainer: Nicolas Foss <nicolas.foss@hhs.iowa.gov>
Diff between traumar versions 1.2.6 dated 2026-05-07 and 1.2.7 dated 2026-06-18
DESCRIPTION | 11 ++-- MD5 | 16 +++-- NEWS.md | 5 + R/not_in.r | 17 +++++- build/partial.rdb |binary inst |only man/grapes-not_in-grapes.Rd | 8 ++ man/traumar-package.Rd | 5 + tests/spelling.R |only tests/testthat/test-not_in.R | 116 +++++++++++++++++++++++++------------------ 10 files changed, 115 insertions(+), 63 deletions(-)
Title: Cross-Quantilogram
Description: Estimation and inference methods for the cross-quantilogram.
The cross-quantilogram is a measure of nonlinear dependence between
two variables, based on either unconditional or conditional quantile
functions. It can be considered an extension of the correlogram,
which is a correlation function over multiple lag periods that mainly
focuses on linear dependency. One can use the cross-quantilogram to
detect the presence of directional predictability from one time series
to another. This package provides a statistical inference method
based on the stationary bootstrap. For detailed theoretical and
empirical explanations, see Linton and Whang (2007) for univariate
time series analysis and Han, Linton, Oka and Whang (2016) for
multivariate time series analysis. The full references for these key
publications are as follows: (1) Linton, O., and Whang, Y. J. (2007).
The quantilogram: with an application to evaluating directional
predictability. Journal of Econometrics, 141(1), 250-282
< [...truncated...]
Author: Tatsushi Oka [aut, cre],
Heejon Han [ctb],
Oliver Linton [ctb],
Yoon-Jae Whang [ctb]
Maintainer: Tatsushi Oka <oka.econ@gmail.com>
Diff between quantilogram versions 3.1.1 dated 2024-08-27 and 3.2.1 dated 2026-06-18
DESCRIPTION | 10 - MD5 | 68 +++---- NEWS.md | 15 - R/Qstat.R | 2 R/Qstat.reg.sb.R | 133 +++----------- R/Qstat.sb.R | 144 +++------------ R/Qstat.sb.opt.R | 143 +-------------- R/corr.lag.partial.R | 4 R/crossq.R | 2 R/crossq.heatmap.R | 411 ++++++++++++++++++++++++-------------------- R/crossq.partial.sb.R | 121 ++++-------- R/crossq.partial.sb.opt.R | 135 ++++---------- R/crossq.plot.R | 249 ++++++++++++++------------ R/crossq.sb.R | 62 +----- R/crossq.sb.opt.R | 179 ++++++------------- R/crossqreg.max.R | 10 - R/crossqreg.sb.R | 173 +++++++----------- R/q.hit.R | 7 R/stock.R | 8 R/sys.risk.R | 4 README.md | 2 data/stock.rda |binary data/sys.risk.rda |binary man/Qstat.Rd | 2 man/Qstat.reg.sb.Rd | 8 man/Qstat.sb.Rd | 8 man/Qstat.sb.opt.Rd | 6 man/crossq.Rd | 2 man/crossq.heatmap.Rd | 32 ++- man/crossq.plot.Rd | 20 -- man/crossqreg.max.Rd | 2 man/crossqreg.sb.Rd | 8 man/quantilogram-package.Rd | 5 man/stock.Rd | 8 man/sys.risk.Rd | 4 35 files changed, 794 insertions(+), 1193 deletions(-)
Title: Render Multilingual Questionnaires from 'LimeSurvey' '.lss'
Files
Description: Render 'LimeSurvey' '.lss' survey exports as multilingual
questionnaire documents in Word ('.docx') or PDF, displaying up to
four languages side by side with localized chrome in English, French,
German, Spanish and Italian. Includes a rule-based automated audit
that flags missing translations, forward filter references, duplicate
codes, array-scale inconsistencies and orphan structural references.
Designed for anyone working with a 'LimeSurvey' survey: researchers,
methodologists, ethics committees, translators and reviewers.
Processing is fully
local: the source file is the only input and no questionnaire content
is uploaded to a third-party service.
Author: Amal Tawfik [aut, cre, cph]
Maintainer: Amal Tawfik <amal.tawfik@hesav.ch>
Diff between lssdoc versions 0.1.0 dated 2026-06-15 and 0.1.1 dated 2026-06-18
DESCRIPTION | 6 +++--- MD5 | 19 ++++++++++--------- NEWS.md | 5 +++++ R/read_lss.R | 27 +++++++++++++++++++++++++++ README.md | 32 ++++++++++++++++++++++---------- inst/CITATION |only inst/WORDLIST | 1 + inst/doc/lssdoc.html | 6 +++--- man/figures/template_cards.png |binary man/figures/template_table.png |binary tests/testthat/test-read_lss.R | 10 ++++++++++ 11 files changed, 81 insertions(+), 25 deletions(-)
Title: Evidence-Based Bayesian Disaggregation of Aggregate Indices
Description: Disaggregates an observed aggregate price index into sectoral
components with a Bayesian state-space model in which the aggregate enters as
a genuine observation density rather than as a renormalization identity. A
random-walk-with-drift transition in log space (with partial pooling on the
drift and the innovation scale) and an estimable cross-sectional
concentration produce posterior draws of the sectoral indices with credible
intervals, suitable as multiple-imputation input for downstream dynamic
models. The Hamiltonian Monte Carlo engine follows Stan (Carpenter et al.,
2017) <doi:10.18637/jss.v076.i01>; model comparison uses Pareto Smoothed
Importance Sampling Leave-One-Out cross-validation (Vehtari, Gelman and
Gabry, 2017) <doi:10.1007/s11222-016-9696-4>. A closed-form linear-Gaussian
Kalman/RTS smoother provides an exact, MCMC-free Bayesian alternative for the
same aggregate evidence.
Author: Jose Mauricio Gomez Julian [aut, cre]
Maintainer: Jose Mauricio Gomez Julian <isadore.nabi@pm.me>
Diff between BayesianDisaggregation versions 0.1.2 dated 2025-10-16 and 0.2.1 dated 2026-06-18
BayesianDisaggregation-0.1.2/BayesianDisaggregation/R/bayesian_disaggregate.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/R/grid_search.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/R/likelihood.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/R/main.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/R/methods.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/R/metrics.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/inst/doc/MANUALUSUARIO-ESP.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/inst/doc/MANUALUSUARIO-ESP.Rmd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/inst/doc/MANUALUSUARIO-ESP.html |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/inst/doc/USERMANUAL-ENG.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/inst/doc/USERMANUAL-ENG.Rmd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/inst/doc/USERMANUAL-ENG.html |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/bayesian_disaggregate.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/coherence_score.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/compute_L_from_P.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/interpretability_score.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/numerical_stability_exp.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/posterior_adaptive.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/posterior_dirichlet.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/posterior_multiplicative.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/posterior_weighted.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/run_grid_search.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/save_results.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/spread_likelihood.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/stability_composite.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/man/temporal_stability.Rd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/tests/testthat/test_data_io.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/tests/testthat/test_utils.R |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/vignettes/MANUALUSUARIO-ESP.Rmd |only BayesianDisaggregation-0.1.2/BayesianDisaggregation/vignettes/USERMANUAL-ENG.Rmd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/DESCRIPTION | 43 +- BayesianDisaggregation-0.2.1/BayesianDisaggregation/MD5 | 75 ++--- BayesianDisaggregation-0.2.1/BayesianDisaggregation/NAMESPACE | 41 -- BayesianDisaggregation-0.2.1/BayesianDisaggregation/NEWS.md |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/baseline_conjugate.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/data_io.R | 76 +---- BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/disaggregate_statespace.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/from_files.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/simulate_disagg.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/stan_backend.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/utils.R | 148 ++++------ BayesianDisaggregation-0.2.1/BayesianDisaggregation/R/zzz-imports.R | 13 BayesianDisaggregation-0.2.1/BayesianDisaggregation/build/vignette.rds |binary BayesianDisaggregation-0.2.1/BayesianDisaggregation/inst/doc/evidence-based-disaggregation.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/inst/doc/evidence-based-disaggregation.Rmd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/inst/doc/evidence-based-disaggregation.html |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/inst/extdata/CPI.xlsx |binary BayesianDisaggregation-0.2.1/BayesianDisaggregation/inst/stan |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/align_disagg_inputs.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/disagg_default_priors.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/disagg_stan_code.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/disaggregate_conjugate.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/disaggregate_from_files.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/disaggregate_statespace.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/log_enable.Rd | 8 BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/read_cpi.Rd | 28 - BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/read_weights_matrix.Rd | 39 -- BayesianDisaggregation-0.2.1/BayesianDisaggregation/man/simulate_disagg.Rd |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat/fixtures |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat/test-conjugate.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat/test-inputs.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat/test-readers.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat/test-statespace-golden.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/tests/testthat/test-statespace-recovery.R |only BayesianDisaggregation-0.2.1/BayesianDisaggregation/vignettes/evidence-based-disaggregation.Rmd |only 66 files changed, 171 insertions(+), 300 deletions(-)
More information about BayesianDisaggregation at CRAN
Permanent link
Title: Empirical Discovery of Differential Equations from Time Series
Data
Description: A comprehensive toolkit for discovering differential and difference
equations from empirical time series data using symbolic regression. The package
implements a complete workflow from data preprocessing (including Total Variation
Regularized differentiation for noisy economic data), visual exploration of
dynamical structure, and symbolic equation discovery via genetic algorithms.
It leverages a high-performance 'Julia' backend ('SymbolicRegression.jl') to provide
industrial-grade robustness, physics-informed constraints, and rigorous
out-of-sample validation. Designed for economists, physicists, and researchers
studying dynamical systems from observational data.
Author: Jose Mauricio Gomez Julian [aut, cre]
Maintainer: Jose Mauricio Gomez Julian <isadore.nabi@pm.me>
Diff between EmpiricalDynamics versions 0.1.3 dated 2026-03-17 and 0.1.5 dated 2026-06-18
DESCRIPTION | 18 MD5 | 15 NEWS.md |only R/symbolic_search.R | 398 ++++++- build/vignette.rds |binary inst/doc/getting-started.R | 700 ++++++------- inst/doc/getting-started.html | 1745 ++++++++++++++++----------------- man/symbolic_search_julia.Rd | 2 man/symbolic_search_julia_connector.Rd |only man/symbolic_search_juliacall.Rd |only 10 files changed, 1584 insertions(+), 1294 deletions(-)
More information about EmpiricalDynamics at CRAN
Permanent link
Title: Access the 'Finna' API
Description: Provides functions to access and retrieve metadata from the 'Finna' API <https://api.finna.fi/>, which aggregates content from Finnish archives, libraries, and museums.
Author: Akewak Jeba [aut, cre] ,
Leo Lahti [aut]
Maintainer: Akewak Jeba <akjeba@utu.fi>
Diff between finna versions 0.1.1 dated 2025-01-22 and 0.1.2 dated 2026-06-18
finna-0.1.1/finna/R/analyze_metadata.R |only finna-0.1.1/finna/R/analyze_trends_over_time.R |only finna-0.1.1/finna/R/fetch_finna_collection.R |only finna-0.1.1/finna/man/analyze_metadata.Rd |only finna-0.1.1/finna/man/analyze_trends_over_time.Rd |only finna-0.1.1/finna/tests/testthat/test-analyze_trends_over_time.R |only finna-0.1.1/finna/tests/testthat/test_analyze_metadata.R |only finna-0.1.1/finna/tests/testthat/test_refinemetadata.R |only finna-0.1.1/finna/vignettes/articles/refinemetadata.Rmd |only finna-0.1.2/finna/DESCRIPTION | 24 finna-0.1.2/finna/MD5 | 94 +- finna-0.1.2/finna/NAMESPACE | 21 finna-0.1.2/finna/R/data.R |only finna-0.1.2/finna/R/enrich_author_name.R | 1 finna-0.1.2/finna/R/fennica_all_records.R | 1 finna-0.1.2/finna/R/fetch_fennica_records.R |only finna-0.1.2/finna/R/fetch_finna.R |only finna-0.1.2/finna/R/fetch_identifiers_oai_pmh.R |only finna-0.1.2/finna/R/fetch_viola_records.R | 5 finna-0.1.2/finna/R/finna_as_json.R | 2 finna-0.1.2/finna/R/finna_cite.R | 1 finna-0.1.2/finna/R/finna_interactive.R | 1 finna-0.1.2/finna/R/get_finna_records.R | 3 finna-0.1.2/finna/R/harvest_oai_pmh.R | 83 + finna-0.1.2/finna/R/refine_metadata.R | 69 - finna-0.1.2/finna/R/save_for_offline.R | 1 finna-0.1.2/finna/R/search_finna.R | 3 finna-0.1.2/finna/R/search_publisher.R | 3 finna-0.1.2/finna/R/search_with_annif.R |only finna-0.1.2/finna/R/summarize_metadata.R |only finna-0.1.2/finna/R/timeline.R |only finna-0.1.2/finna/R/utils.R | 3 finna-0.1.2/finna/R/zzz.R |only finna-0.1.2/finna/README.md | 20 finna-0.1.2/finna/build/vignette.rds |binary finna-0.1.2/finna/data |only finna-0.1.2/finna/inst/doc/vignette.R | 4 finna-0.1.2/finna/inst/doc/vignette.Rmd | 9 finna-0.1.2/finna/inst/doc/vignette.html | 421 +++++----- finna-0.1.2/finna/man/fennica_subset.Rd |only finna-0.1.2/finna/man/fetch_fennica_records.Rd |only finna-0.1.2/finna/man/fetch_finna.Rd | 2 finna-0.1.2/finna/man/fetch_identifiers_with_sets.Rd |only finna-0.1.2/finna/man/fetch_oai_sets.Rd |only finna-0.1.2/finna/man/fetch_viola_records.Rd | 4 finna-0.1.2/finna/man/get_finna_records.Rd | 2 finna-0.1.2/finna/man/parse_marc_fields.Rd |only finna-0.1.2/finna/man/refine_metadata.Rd | 38 finna-0.1.2/finna/man/search_finna.Rd | 2 finna-0.1.2/finna/man/search_finna_with_annif.Rd |only finna-0.1.2/finna/man/search_publisher.Rd | 2 finna-0.1.2/finna/man/summarize_metadata.Rd |only finna-0.1.2/finna/man/timeline.Rd |only finna-0.1.2/finna/tests/testthat/test-fetch_finna.R | 2 finna-0.1.2/finna/tests/testthat/test-get_finna_records.R | 2 finna-0.1.2/finna/tests/testthat/test-search_publisher.R | 1 finna-0.1.2/finna/tests/testthat/test_search_finna.R | 1 finna-0.1.2/finna/vignettes/articles/Fennica.Rmd | 20 finna-0.1.2/finna/vignettes/articles/analyse_metadata.Rmd |only finna-0.1.2/finna/vignettes/articles/fennica_authors_kanto.Rmd |only finna-0.1.2/finna/vignettes/articles/viola_collections.Rmd | 63 + finna-0.1.2/finna/vignettes/vignette.Rmd | 9 62 files changed, 585 insertions(+), 332 deletions(-)
Title: Dynamic Factor Models
Description: Efficient estimation of Dynamic Factor Models using the Expectation Maximization (EM) algorithm
or Two-Step (2S) estimation, supporting datasets with missing data and mixed-frequency nowcasting applications.
Factors follow a stationary VAR process of order p. Estimation options include: running the Kalman Filter and
Smoother once with PCA initial values (2S) as in Doz, Giannone and Reichlin (2011) <doi:10.1016/j.jeconom.2011.02.012>;
iterated Kalman Filtering and Smoothing until EM convergence as in Doz, Giannone and Reichlin (2012)
<doi:10.1162/REST_a_00225>; or the adapted EM algorithm of Banbura and Modugno (2014) <doi:10.1002/jae.2306>,
allowing arbitrary missing-data patterns and monthly-quarterly mixed-frequency datasets. The implementation uses
the 'Armadillo' 'C++' library and the 'collapse' package for fast estimation. A comprehensive set of methods supports
interpretation and visualization, forecasting, and decomposition of the 'news' content of macroeconomi [...truncated...]
Author: Sebastian Krantz [aut, cre],
Rytis Bagdziunas [aut],
Santtu Tikka [rev],
Eli Holmes [rev],
Christian Klettner [ctb]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between dfms versions 1.0.0 dated 2026-01-26 and 1.0.1 dated 2026-06-18
dfms-1.0.0/dfms/inst/doc/introduction.R |only dfms-1.0.1/dfms/DESCRIPTION | 16 dfms-1.0.1/dfms/MD5 | 26 dfms-1.0.1/dfms/NAMESPACE | 2 dfms-1.0.1/dfms/NEWS.md | 5 dfms-1.0.1/dfms/R/convert.R |only dfms-1.0.1/dfms/R/methods.R | 8 dfms-1.0.1/dfms/README.md | 10 dfms-1.0.1/dfms/build/vignette.rds |binary dfms-1.0.1/dfms/inst/doc/dynamic_factor_models.pdf |binary dfms-1.0.1/dfms/inst/doc/introduction.Rmd | 441 +++++++-- dfms-1.0.1/dfms/inst/doc/introduction.html | 999 ++++++++------------- dfms-1.0.1/dfms/man/convert.Rd |only dfms-1.0.1/dfms/man/news.Rd | 8 dfms-1.0.1/dfms/vignettes/introduction.Rmd | 441 +++++++-- dfms-1.0.1/dfms/vignettes/introduction.Rmd.orig |only 16 files changed, 1219 insertions(+), 737 deletions(-)
Title: Bayesian Nonlinear Ornstein-Uhlenbeck Models with Stochastic
Volatility
Description: Fits Bayesian nonlinear Ornstein-Uhlenbeck models with cubic drift,
stochastic volatility, and Student-t innovations. The package implements
hierarchical priors for sector-specific parameters and supports parallel
MCMC sampling via 'Stan'. Model comparison is performed using Pareto
Smoothed Importance Sampling Leave-One-Out (PSIS-LOO) cross-validation
following Vehtari, Gelman, and Gabry (2017)
<doi:10.1007/s11222-016-9696-4>. Prior specifications follow recommendations
from Gelman (2006) <doi:10.1214/06-BA117A> for scale parameters.
Author: Jose Mauricio Gomez Julian [aut, cre]
Maintainer: Jose Mauricio Gomez Julian <isadore.nabi@pm.me>
Diff between bayesianOU versions 0.1.3 dated 2025-12-19 and 0.2.0 dated 2026-06-18
bayesianOU-0.1.3/bayesianOU/inst/stan/ou_nonlinear_tmg.stan |only bayesianOU-0.1.3/bayesianOU/man/ou_nonlinear_tmg_stan_code.Rd |only bayesianOU-0.2.0/bayesianOU/DESCRIPTION | 17 bayesianOU-0.2.0/bayesianOU/MD5 | 93 - bayesianOU-0.2.0/bayesianOU/NAMESPACE | 24 bayesianOU-0.2.0/bayesianOU/NEWS.md |only bayesianOU-0.2.0/bayesianOU/R/bayesianOU-package.R | 66 bayesianOU-0.2.0/bayesianOU/R/diagnostics.R | 744 +++++---- bayesianOU-0.2.0/bayesianOU/R/export.R | 418 ++--- bayesianOU-0.2.0/bayesianOU/R/extractors.R | 768 +++++----- bayesianOU-0.2.0/bayesianOU/R/extractors_nested.R |only bayesianOU-0.2.0/bayesianOU/R/fit_ou_nested.R |only bayesianOU-0.2.0/bayesianOU/R/fit_ou_nested_mi.R |only bayesianOU-0.2.0/bayesianOU/R/fit_ou_nonlinear.R | 494 +----- bayesianOU-0.2.0/bayesianOU/R/geometry.R |only bayesianOU-0.2.0/bayesianOU/R/level_spec.R |only bayesianOU-0.2.0/bayesianOU/R/plots.R | 454 ++--- bayesianOU-0.2.0/bayesianOU/R/s3_methods.R |only bayesianOU-0.2.0/bayesianOU/R/stan_code.R | 290 --- bayesianOU-0.2.0/bayesianOU/R/utils.R | 404 ++--- bayesianOU-0.2.0/bayesianOU/README.md | 152 + bayesianOU-0.2.0/bayesianOU/build |only bayesianOU-0.2.0/bayesianOU/inst/doc |only bayesianOU-0.2.0/bayesianOU/inst/stan/ou_nested.stan |only bayesianOU-0.2.0/bayesianOU/man/bayesianOU-package.Rd | 27 bayesianOU-0.2.0/bayesianOU/man/build_beta_tmg_table.Rd | 11 bayesianOU-0.2.0/bayesianOU/man/compute_common_factor.Rd | 10 bayesianOU-0.2.0/bayesianOU/man/drift_decomposition_grid.Rd | 8 bayesianOU-0.2.0/bayesianOU/man/evaluate_oos.Rd | 20 bayesianOU-0.2.0/bayesianOU/man/evaluate_oos_nested.Rd |only bayesianOU-0.2.0/bayesianOU/man/extract_convergence_evidence.Rd | 24 bayesianOU-0.2.0/bayesianOU/man/extract_mu_trajectory.Rd |only bayesianOU-0.2.0/bayesianOU/man/fit_ou_nested.Rd |only bayesianOU-0.2.0/bayesianOU/man/fit_ou_nested_mi.Rd |only bayesianOU-0.2.0/bayesianOU/man/fit_ou_nonlinear_tmg.Rd | 86 - bayesianOU-0.2.0/bayesianOU/man/kappa_stability_evidence.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_geom_bridge.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_geom_hmc.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_geom_metric_euclidean.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_geom_metric_riemannian.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_geom_target.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_level_spec.Rd |only bayesianOU-0.2.0/bayesianOU/man/ou_nested_stan_code.Rd |only bayesianOU-0.2.0/bayesianOU/man/plot.ou_nested_2level.Rd |only bayesianOU-0.2.0/bayesianOU/man/plot.ou_nested_mi.Rd |only bayesianOU-0.2.0/bayesianOU/man/print.ou_nested_2level.Rd |only bayesianOU-0.2.0/bayesianOU/man/print.ou_nested_mi.Rd |only bayesianOU-0.2.0/bayesianOU/man/summary.ou_nested_2level.Rd |only bayesianOU-0.2.0/bayesianOU/man/summary.ou_nested_mi.Rd |only bayesianOU-0.2.0/bayesianOU/tests/testthat/fixtures |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-equivalence.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-extractors.R | 6 bayesianOU-0.2.0/bayesianOU/tests/testthat/test-geometry.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-golden-configs.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-level-spec.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-loo.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-mi-checkpoint.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-mi-imputation-inputs.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-nested-extractors.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-oos.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-recon-wiring.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-recovery-by-config.R |only bayesianOU-0.2.0/bayesianOU/tests/testthat/test-recovery.R |only bayesianOU-0.2.0/bayesianOU/vignettes |only 64 files changed, 2082 insertions(+), 2034 deletions(-)
Title: Importing, Constructing, and Exporting Bibliometric Networks
Description: Imports, constructs, and exports bibliometric networks from
scholarly metadata. Reads 'Scopus', 'Web of Science', 'BibTeX',
'RIS', 'OpenAlex', 'Lens.org', 'Dimensions', and 'Crossref'
exports. Goes beyond standard co-networks with attention-weighted
networks (lead, last, proximity, circular position weights),
position-aware counting (harmonic, arithmetic, geometric,
golden-ratio), similarity and dissimilarity normalisations,
temporal networks with fixed, sliding, and cumulative windows,
disparity-filter backbone extraction, historiograph construction,
and local citation scoring. Methods described in López-Pernas,
Saqr & Apiola (2023) <doi:10.1007/978-3-031-25336-2_5>.
Author: Mohammed Saqr [aut, cre, cph] ,
Sonsoles Lopez-Pernas [aut]
Maintainer: Mohammed Saqr <saqr@saqr.me>
Diff between bibnets versions 0.4.4 dated 2026-05-20 and 0.6.0 dated 2026-06-18
bibnets-0.4.4/bibnets/data/open_alex_gold_open_access_learning_analytics.rda |only bibnets-0.4.4/bibnets/man/open_alex_gold_open_access_learning_analytics.Rd |only bibnets-0.6.0/bibnets/DESCRIPTION | 6 bibnets-0.6.0/bibnets/MD5 | 108 bibnets-0.6.0/bibnets/NAMESPACE | 1 bibnets-0.6.0/bibnets/NEWS.md | 156 + bibnets-0.6.0/bibnets/R/author-network.R | 72 bibnets-0.6.0/bibnets/R/bipartite.R | 9 bibnets-0.6.0/bibnets/R/co-network.R | 73 bibnets-0.6.0/bibnets/R/counting.R | 5 bibnets-0.6.0/bibnets/R/country-network.R | 44 bibnets-0.6.0/bibnets/R/data.R | 11 bibnets-0.6.0/bibnets/R/document-network.R | 29 bibnets-0.6.0/bibnets/R/historiograph.R | 47 bibnets-0.6.0/bibnets/R/institution-network.R | 44 bibnets-0.6.0/bibnets/R/keyword-network.R | 42 bibnets-0.6.0/bibnets/R/parse-names.R |only bibnets-0.6.0/bibnets/R/read-biblio.R | 118 bibnets-0.6.0/bibnets/R/reference-network.R | 23 bibnets-0.6.0/bibnets/R/source-network.R | 44 bibnets-0.6.0/bibnets/R/utils.R | 64 bibnets-0.6.0/bibnets/build/vignette.rds |binary bibnets-0.6.0/bibnets/data/learning_analytics.rda |only bibnets-0.6.0/bibnets/inst/doc/attention.R |only bibnets-0.6.0/bibnets/inst/doc/attention.Rmd |only bibnets-0.6.0/bibnets/inst/doc/attention.html |only bibnets-0.6.0/bibnets/inst/doc/bibnets.R | 252 - bibnets-0.6.0/bibnets/inst/doc/bibnets.Rmd | 726 ++--- bibnets-0.6.0/bibnets/inst/doc/bibnets.html | 1399 +++++----- bibnets-0.6.0/bibnets/inst/doc/parsing-author-names.R |only bibnets-0.6.0/bibnets/inst/doc/parsing-author-names.Rmd |only bibnets-0.6.0/bibnets/inst/doc/parsing-author-names.html |only bibnets-0.6.0/bibnets/inst/doc/reading-data.R | 138 bibnets-0.6.0/bibnets/inst/doc/reading-data.Rmd | 398 +- bibnets-0.6.0/bibnets/inst/doc/reading-data.html | 735 +++-- bibnets-0.6.0/bibnets/man/author_network.Rd | 42 bibnets-0.6.0/bibnets/man/build_author_bipartite.Rd | 4 bibnets-0.6.0/bibnets/man/build_bipartite.Rd | 15 bibnets-0.6.0/bibnets/man/build_by_network.Rd | 3 bibnets-0.6.0/bibnets/man/conetwork.Rd | 13 bibnets-0.6.0/bibnets/man/country_network.Rd | 34 bibnets-0.6.0/bibnets/man/document_network.Rd | 25 bibnets-0.6.0/bibnets/man/ensure_list_column.Rd | 8 bibnets-0.6.0/bibnets/man/historiograph.Rd | 28 bibnets-0.6.0/bibnets/man/institution_network.Rd | 34 bibnets-0.6.0/bibnets/man/keyword_network.Rd | 33 bibnets-0.6.0/bibnets/man/learning_analytics.Rd |only bibnets-0.6.0/bibnets/man/local_citations.Rd | 26 bibnets-0.6.0/bibnets/man/parse_names.Rd |only bibnets-0.6.0/bibnets/man/read_biblio.Rd | 51 bibnets-0.6.0/bibnets/man/read_generic.Rd | 13 bibnets-0.6.0/bibnets/man/read_single_biblio.Rd | 15 bibnets-0.6.0/bibnets/man/reference_network.Rd | 25 bibnets-0.6.0/bibnets/man/resolve_id.Rd |only bibnets-0.6.0/bibnets/man/source_network.Rd | 27 bibnets-0.6.0/bibnets/man/strip_surrounding_quotes.Rd |only bibnets-0.6.0/bibnets/man/warn_if_sep_mismatch.Rd |only bibnets-0.6.0/bibnets/tests/testthat/test-custom-field-sep.R |only bibnets-0.6.0/bibnets/tests/testthat/test-id-resolution.R |only bibnets-0.6.0/bibnets/tests/testthat/test-parse-names.R |only bibnets-0.6.0/bibnets/tests/testthat/test-read-biblio.R | 83 bibnets-0.6.0/bibnets/vignettes/attention.Rmd |only bibnets-0.6.0/bibnets/vignettes/bibnets.Rmd | 726 ++--- bibnets-0.6.0/bibnets/vignettes/parsing-author-names.Rmd |only bibnets-0.6.0/bibnets/vignettes/reading-data.Rmd | 398 +- 65 files changed, 3779 insertions(+), 2368 deletions(-)
More information about transitiontrees at CRAN
Permanent link
Title: Read bigWig and bigBed Files
Description: Read bigWig and bigBed files using "libBigWig"
<https://github.com/dpryan79/libBigWig>. Provides lightweight access
to the binary bigWig and bigBed formats developed by the UCSC Genome
Browser group.
Author: Jay Hesselberth [aut, cre],
RNA Bioscience Initiative [fnd, cph],
Devon Ryan [cph]
Maintainer: Jay Hesselberth <jay.hesselberth@gmail.com>
Diff between cpp11bigwig versions 0.1.3 dated 2025-12-11 and 0.2.0 dated 2026-06-18
cpp11bigwig-0.1.3/cpp11bigwig/src/Makevars |only cpp11bigwig-0.1.3/cpp11bigwig/src/Makevars.win |only cpp11bigwig-0.2.0/cpp11bigwig/DESCRIPTION | 12 - cpp11bigwig-0.2.0/cpp11bigwig/MD5 | 31 +-- cpp11bigwig-0.2.0/cpp11bigwig/NAMESPACE | 2 cpp11bigwig-0.2.0/cpp11bigwig/NEWS.md | 11 + cpp11bigwig-0.2.0/cpp11bigwig/R/cpp11.R | 4 cpp11bigwig-0.2.0/cpp11bigwig/R/read.r | 129 +++++++++++++-- cpp11bigwig-0.2.0/cpp11bigwig/cleanup |only cpp11bigwig-0.2.0/cpp11bigwig/configure |only cpp11bigwig-0.2.0/cpp11bigwig/configure.win |only cpp11bigwig-0.2.0/cpp11bigwig/man/read_bigbed.Rd | 4 cpp11bigwig-0.2.0/cpp11bigwig/man/read_bigwig.Rd | 36 +++- cpp11bigwig-0.2.0/cpp11bigwig/src/Makevars.in |only cpp11bigwig-0.2.0/cpp11bigwig/src/Makevars.win.in |only cpp11bigwig-0.2.0/cpp11bigwig/src/cpp11.cpp | 14 + cpp11bigwig-0.2.0/cpp11bigwig/src/cpp11bigwig.cpp | 19 ++ cpp11bigwig-0.2.0/cpp11bigwig/src/libBigWig/Makefile | 3 cpp11bigwig-0.2.0/cpp11bigwig/src/libBigWig/io.c | 6 cpp11bigwig-0.2.0/cpp11bigwig/tests/testthat/test-read.R | 83 +++++++++ 20 files changed, 309 insertions(+), 45 deletions(-)
Title: Easy Import of the EU Labour Market Policy Data
Description: European Commission's Labour Market Policy (LMP) database
(<https://webgate.ec.europa.eu/empl/redisstat/databrowser/explore/all/lmp?lang=en&display=card&sort=category>)
provides information on labour market interventions, which are government
actions to help and support the unemployed and other disadvantaged groups in
the transition from unemployment or inactivity to work. It covers the EU
countries and Norway. This package provides functions for downloading and
importing the LMP data and metadata (codelists).
Author: Aleksander Rutkowski [aut, cre]
Maintainer: Aleksander Rutkowski <alek.rutkowski@gmail.com>
Diff between LMPdata versions 0.2.0 dated 2025-01-30 and 0.2.1 dated 2026-06-18
DESCRIPTION | 10 - LICENSE | 4 MD5 | 16 +- NAMESPACE | 12 - R/lib.R | 401 ++++++++++++++++++++++++++++++++-------------------- README.md | 193 ++++++++++++------------- man/LMPdata.Rd | 16 +- man/importData.Rd | 82 +++++----- man/importLabels.Rd | 74 ++++----- 9 files changed, 459 insertions(+), 349 deletions(-)
Title: 'shiny' App for TRAPD/ISPOR Survey Translation with LLMs
Description: A 'shiny' application to automate forward and back survey translation
with optional reconciliation using large language models (LLMs). Supports
both item-by-item and batch translation modes for optimal performance and
context-aware translations. Handles multi-sheet Excel files and supports
OpenAI (GPT), Google Gemini, and Anthropic Claude models. Follows the
TRAPD (Translation, Review, Adjudication, Pretesting, Documentation)
framework and ISPOR (International Society for Pharmacoeconomics and
Outcomes Research) recommendations. See Harkness et al. (2010)
<doi:10.1002/9780470609927.ch7> and Wild et al. (2005)
<doi:10.1111/j.1524-4733.2005.04054.x>.
Author: Jonas R. Kunst [aut, cre]
Maintainer: Jonas R. Kunst <jonas.r.kunst@bi.no>
Diff between LLMTranslate versions 0.3.0 dated 2026-01-12 and 0.4.0 dated 2026-06-18
DESCRIPTION | 6 - MD5 | 10 +-- NEWS.md | 28 +++++++++ R/internal-helpers.R | 124 ++++++++++++++++++++++++++++++++++------ inst/app/app.R | 91 ++++++++++++++++++----------- tests/testthat/test-internals.R | 40 ++++++++++++ 6 files changed, 240 insertions(+), 59 deletions(-)
Title: Vector Field Visualizations with 'ggplot2'
Description: A 'ggplot2' extension for visualizing vector fields in two-dimensional
space. Provides flexible tools for creating vector and stream field layers,
visualizing gradients and potential fields, and smoothing vector and
scalar data to estimate underlying patterns.
Author: Dusty Turner [aut, cre],
David Kahle [aut],
Rodney X. Sturdivant [aut]
Maintainer: Dusty Turner <dusty.s.turner@gmail.com>
Diff between ggvfields versions 1.0.0 dated 2025-03-15 and 1.0.1 dated 2026-06-18
DESCRIPTION | 13 MD5 | 128 +++---- NAMESPACE | 10 NEWS.md | 11 R/efield.R | 18 - R/geom_gradient_field.R | 17 - R/geom_gradient_smooth.R | 2 R/geom_potential.R | 2 R/geom_stream.R | 71 +++- R/geom_stream_field.R | 71 +++- R/geom_stream_smooth.R | 88 ++++- R/geom_vector_field.R | 24 - R/geom_vector_smooth.R | 485 ++++++++++++++++++++++++++-- R/helper-functions.R | 342 -------------------- README.md | 485 ++++++++++++++-------------- man/efield.Rd | 10 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-13-1.png |binary man/figures/README-unnamed-chunk-14-1.png |binary man/figures/README-unnamed-chunk-15-1.png |binary man/figures/README-unnamed-chunk-16-1.png |binary man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-18-1.png |binary man/figures/README-unnamed-chunk-19-1.png |binary man/figures/README-unnamed-chunk-20-1.png |binary man/figures/README-unnamed-chunk-21-1.png |binary man/figures/README-unnamed-chunk-22-1.png |binary man/figures/README-unnamed-chunk-23-1.png |binary man/figures/README-unnamed-chunk-24-1.png |binary man/figures/README-unnamed-chunk-25-1.png |binary man/figures/README-unnamed-chunk-26-1.png |binary man/figures/README-unnamed-chunk-27-1.png |binary man/figures/README-unnamed-chunk-28-1.png |binary man/figures/README-unnamed-chunk-29-1.png |binary man/figures/README-unnamed-chunk-30-1.png |binary man/figures/README-unnamed-chunk-31-1.png |binary man/figures/README-unnamed-chunk-32-1.png |binary man/figures/README-unnamed-chunk-33-1.png |binary man/figures/README-unnamed-chunk-34-1.png |binary man/figures/README-unnamed-chunk-35-1.png |binary man/figures/README-unnamed-chunk-36-1.png |binary man/figures/README-unnamed-chunk-37-1.png |only man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/figures/ggvfields_hex.png |binary man/geom_gradient_field.Rd | 2 man/geom_gradient_smooth.Rd | 426 ++++++++++++------------- man/geom_potential.Rd | 2 man/geom_stream.Rd | 13 man/geom_stream_field.Rd | 2 man/geom_stream_smooth.Rd | 11 man/geom_vector.Rd | 506 +++++++++++++++--------------- man/geom_vector_field.Rd | 2 man/geom_vector_smooth.Rd | 381 +++++++++++----------- man/scale_length_continuous.Rd | 62 +-- tests/testthat.R | 24 - tests/testthat/Rplots.pdf |only tests/testthat/test-geom_stream.R | 14 tests/testthat/test-geom_stream_smooth.R | 34 +- tests/testthat/test-geom_vector_smooth.R | 11 66 files changed, 1758 insertions(+), 1509 deletions(-)
Title: Fast and Easy Eurostat Data Import and Search
Description: Interface to Eurostat’s API (SDMX 2.1) with fast data.table-based import of
data, labels, and metadata. On top of the core functionality, data search and data
description/comparison functions are also provided.
Use <https://github.com/alekrutkowski/eurodata_codegen> — a point-and-click app for rapid and
easy generation of richly-commented R code — to import a Eurostat dataset or its subset
(based on the eurodata::importData() function).
Author: Aleksander Rutkowski [aut, cre]
Maintainer: Aleksander Rutkowski <alek.rutkowski@gmail.com>
Diff between eurodata versions 1.7.0 dated 2023-05-06 and 1.8.0 dated 2026-06-18
DESCRIPTION | 12 ++--- MD5 | 6 +- R/core_import.R | 132 ++++++++++++++++++++++++++++++++++++++++++++------------ README.md | 8 +-- 4 files changed, 117 insertions(+), 41 deletions(-)
Title: Data Validation Based on 'YAML' Rules
Description: A comprehensive data validation package that allows comparing
datasets using configurable validation rules defined in 'YAML' files.
Built on top of the 'pointblank' package for robust data validation, it
supports exact matching, tolerance-based numeric comparisons, text
normalization, and row count validation.
Author: Vincent Guyader [cre, aut] ,
ThinkR [cph],
Agence technique de l'information sur l'hospitalisation [spn]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between datadiff versions 0.4.4 dated 2026-03-18 and 0.5.0 dated 2026-06-18
DESCRIPTION | 11 MD5 | 72 - NAMESPACE | 62 - NEWS.md | 585 +++++---- R/compare_datasets_from_yaml.R | 1183 ++++++++++--------- R/coverage.R |only R/duplicate_keys.R |only R/fast_path.R |only R/pointblank_setup.R | 279 ++-- R/report.R |only R/tolerance.R | 388 ++++-- R/utils.R | 85 - README.md | 60 - build/vignette.rds |binary inst/WORDLIST |only inst/doc/datadiff.R | 37 inst/doc/datadiff.Rmd | 119 + inst/doc/datadiff.html | 1037 +++++++++-------- man/compare_datasets_from_yaml.Rd | 231 ++- man/datadiff_report_html.Rd |only man/print.datadiff_coverage.Rd |only man/print.datadiff_report.Rd |only man/setup_pointblank_agent.Rd | 161 +- man/write_rules_template.Rd | 160 +- tests/testthat/helper-equivalence.R |only tests/testthat/test-coverage.R |only tests/testthat/test-duplicate-keys.R |only tests/testthat/test-edge-cases.R | 1636 +++++++++++++-------------- tests/testthat/test-equivalence-guard.R |only tests/testthat/test-fast_path.R |only tests/testthat/test-input-validation.R | 405 +++--- tests/testthat/test-internal-coverage.R |only tests/testthat/test-key-parameter.R | 656 +++++----- tests/testthat/test-lazy-sql-bool.R |only tests/testthat/test-lazy-tables.R | 1800 +++++++++++++++--------------- tests/testthat/test-main-integration.R | 645 +++++----- tests/testthat/test-main.R | 125 +- tests/testthat/test-pointblank-setup.R | 304 ++--- tests/testthat/test-report.R |only tests/testthat/test-row-validation.R | 274 ++-- tests/testthat/test-template-parameters.R | 388 +++--- tests/testthat/test-tolerance-kernel.R |only tests/testthat/test-tolerance-ok.R |only tests/testthat/test-tolerance.R | 2 tests/testthat/test-utils.R | 4 vignettes/datadiff.Rmd | 119 + 46 files changed, 5734 insertions(+), 5094 deletions(-)
More information about sdc.redistribute at CRAN
Permanent link
Title: 'shiny' Applications for the 'tesselle' Packages
Description: A collection of 'shiny' applications for the 'tesselle'
packages <https://www.tesselle.org/>. This package provides
applications for archaeological data analysis and visualization. These
mainly, but not exclusively, include applications for chronological
modelling (e.g. matrix seriation, aoristic analysis) and count data
analysis (e.g. diversity measures, compositional data analysis).
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [art] ,
Universite Bordeaux Montaigne [fnd] ,
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between kinesis versions 0.3.1 dated 2025-09-29 and 0.4.0 dated 2026-06-18
DESCRIPTION | 19 - MD5 | 202 ++++++++-------- NAMESPACE | 2 NEWS.md | 14 + R/aorisitc.R | 14 - R/ca.R | 20 - R/calibrate.R |only R/coda.R | 2 R/coda_hclust.R | 22 - R/coda_logratio.R | 5 R/coda_outliers.R | 4 R/coda_statistics.R | 11 R/count_diversity_alpha.R | 7 R/count_diversity_beta.R | 27 +- R/count_mcd.R | 13 - R/count_occurrence.R | 13 - R/graphics.R | 30 +- R/kinesis-internal.R | 30 -- R/kinesis-package.R | 8 R/lm.R | 2 R/multivariate.R | 19 + R/pca.R | 17 - R/prepare.R | 7 R/run.R | 26 +- R/seriate.R | 7 R/table.R | 114 +++++---- R/variables.R | 6 R/zzz.R | 7 README.md | 33 +- build/partial.rdb |binary inst/CITATION | 2 inst/app/radiocarbon |only inst/extdata/ksarakil.csv |only inst/po/fr/LC_MESSAGES/R-kinesis.mo |binary man/aoristic_server.Rd | 14 - man/aoristic_ui.Rd | 16 - man/bertin_server.Rd | 26 +- man/bertin_ui.Rd | 28 +- man/ca_server.Rd | 12 man/ca_ui.Rd | 14 - man/calibrate_server.Rd |only man/calibrate_ui.Rd |only man/coda_barplot_server.Rd | 28 +- man/coda_barplot_ui.Rd | 30 +- man/coda_hclust_server.Rd | 28 +- man/coda_hclust_ui.Rd | 30 +- man/coda_hist_server.Rd | 28 +- man/coda_hist_ui.Rd | 30 +- man/coda_outliers_server.Rd | 28 +- man/coda_outliers_ui.Rd | 30 +- man/coda_server.Rd | 28 +- man/coda_summary_server.Rd | 28 +- man/coda_summary_ui.Rd | 30 +- man/coda_ui.Rd | 30 +- man/count_server.Rd | 26 +- man/count_ui.Rd | 28 +- man/diversity_alpha_server.Rd | 26 +- man/diversity_alpha_ui.Rd | 28 +- man/diversity_beta_server.Rd | 26 +- man/diversity_beta_ui.Rd | 28 +- man/diversity_docs_ui.Rd | 28 +- man/diversity_server.Rd | 26 +- man/diversity_ui.Rd | 28 +- man/export_multiple.Rd |only man/export_table.Rd |only man/footer_server.Rd | 8 man/footer_ui.Rd | 10 man/get_option.Rd | 2 man/graphics_server.Rd | 14 - man/graphics_ui.Rd | 15 - man/home_server.Rd | 8 man/home_ui.Rd | 10 man/import_server.Rd | 8 man/import_ui.Rd | 8 man/kinesis-package.Rd | 17 - man/lm_server.Rd | 4 man/lm_ui.Rd | 6 man/logratio_server.Rd | 28 +- man/logratio_ui.Rd | 30 +- man/mcd_server.Rd | 4 man/mcd_ui.Rd | 6 man/multivariate_server.Rd | 14 - man/multivariate_ui.Rd | 14 - man/occurrence_server.Rd | 26 +- man/occurrence_ui.Rd | 28 +- man/output_plot.Rd | 6 man/pca_server.Rd | 12 man/pca_ui.Rd | 14 - man/prepare_server.Rd | 8 man/prepare_ui.Rd | 10 man/render_plot.Rd | 4 man/run_app.Rd | 29 +- man/scatter_server.Rd | 12 man/scatter_ui.Rd | 14 - man/selectize_ui.Rd | 4 man/seriate_server.Rd | 16 - man/seriate_ui.Rd | 16 - man/ternary_server.Rd | 12 man/ternary_ui.Rd | 14 - man/theme_ui.Rd | 2 man/time_interval_server.Rd | 14 - man/time_interval_ui.Rd | 16 - po/R-fr.po | 445 ++++++++++++++++++++++++------------ po/R-kinesis.pot | 432 +++++++++++++++++++++++----------- 104 files changed, 1523 insertions(+), 1202 deletions(-)
Title: Brain Atlas Data Structures for the 'ggsegverse' Ecosystem
Description: Provides the 'ggseg_atlas' S3 class used across the 'ggsegverse'
ecosystem for 2D and 3D brain visualisation. Ships four bundled atlases
('Desikan-Killiany', 'FreeSurfer' 'aseg', 'TRACULA', 'SUIT') and functions
for querying, subsetting, renaming, and enriching atlas objects. Also
includes readers for 'FreeSurfer' statistics files.
Author: Athanasia Mo Mowinckel [aut, cre] ,
Center for Lifespan Changes in Brain and Cognition , University
of Oslo [cph]
Maintainer: Athanasia Mo Mowinckel <a.m.mowinckel@psykologi.uio.no>
Diff between ggseg.formats versions 0.0.2 dated 2026-04-03 and 0.0.3 dated 2026-06-18
ggseg.formats-0.0.2/ggseg.formats/R/atlas-accessors.R |only ggseg.formats-0.0.2/ggseg.formats/R/atlas-convert.R |only ggseg.formats-0.0.2/ggseg.formats/R/atlas-utils.R |only ggseg.formats-0.0.2/ggseg.formats/R/brain-mesh.R |only ggseg.formats-0.0.2/ggseg.formats/R/ggseg.formats-package.R |only ggseg.formats-0.0.2/ggseg.formats/man/ggseg.Rd |only ggseg.formats-0.0.2/ggseg.formats/tests/testthat/_snaps |only ggseg.formats-0.0.2/ggseg.formats/tests/testthat/test-atlas-accessors.R |only ggseg.formats-0.0.2/ggseg.formats/tests/testthat/test-atlas-convert.R |only ggseg.formats-0.0.2/ggseg.formats/tests/testthat/test-atlas-utils.R |only ggseg.formats-0.0.2/ggseg.formats/tests/testthat/test-brain-mesh.R |only ggseg.formats-0.0.2/ggseg.formats/tests/testthat/test-read_freesurfer_stats.R |only ggseg.formats-0.0.3/ggseg.formats/DESCRIPTION | 24 ggseg.formats-0.0.3/ggseg.formats/MD5 | 165 +- ggseg.formats-0.0.3/ggseg.formats/NAMESPACE | 40 ggseg.formats-0.0.3/ggseg.formats/NEWS.md | 183 +++ ggseg.formats-0.0.3/ggseg.formats/R/atlas_accessors.R |only ggseg.formats-0.0.3/ggseg.formats/R/atlas_convert.R |only ggseg.formats-0.0.3/ggseg.formats/R/atlas_polygon_converters.R |only ggseg.formats-0.0.3/ggseg.formats/R/atlas_polygon_ops.R |only ggseg.formats-0.0.3/ggseg.formats/R/atlas_polygons.R |only ggseg.formats-0.0.3/ggseg.formats/R/atlas_utils.R |only ggseg.formats-0.0.3/ggseg.formats/R/atlases.R | 47 ggseg.formats-0.0.3/ggseg.formats/R/brain_mesh.R |only ggseg.formats-0.0.3/ggseg.formats/R/coercion.R | 103 + ggseg.formats-0.0.3/ggseg.formats/R/compat_dataframe.R |only ggseg.formats-0.0.3/ggseg.formats/R/ggseg.formats_package.R |only ggseg.formats-0.0.3/ggseg.formats/R/ggseg_atlas.R | 579 +++++++--- ggseg.formats-0.0.3/ggseg.formats/R/ggseg_atlas_data.R | 392 +++--- ggseg.formats-0.0.3/ggseg.formats/R/migrate_atlas_files.R |only ggseg.formats-0.0.3/ggseg.formats/R/read_freesurfer.R | 76 - ggseg.formats-0.0.3/ggseg.formats/R/sf_availability.R |only ggseg.formats-0.0.3/ggseg.formats/R/sysdata.rda |binary ggseg.formats-0.0.3/ggseg.formats/R/validation.R | 196 ++- ggseg.formats-0.0.3/ggseg.formats/README.md | 27 ggseg.formats-0.0.3/ggseg.formats/build/vignette.rds |binary ggseg.formats-0.0.3/ggseg.formats/inst/WORDLIST | 62 + ggseg.formats-0.0.3/ggseg.formats/inst/doc/atlas-manipulation.R | 4 ggseg.formats-0.0.3/ggseg.formats/inst/doc/atlas-manipulation.Rmd | 4 ggseg.formats-0.0.3/ggseg.formats/inst/doc/atlas-manipulation.html | 80 - ggseg.formats-0.0.3/ggseg.formats/inst/doc/ggseg.formats.R | 3 ggseg.formats-0.0.3/ggseg.formats/inst/doc/ggseg.formats.Rmd | 8 ggseg.formats-0.0.3/ggseg.formats/inst/doc/ggseg.formats.html | 491 +++++--- ggseg.formats-0.0.3/ggseg.formats/inst/doc/migrating-atlases.R |only ggseg.formats-0.0.3/ggseg.formats/inst/doc/migrating-atlases.Rmd |only ggseg.formats-0.0.3/ggseg.formats/inst/doc/migrating-atlases.html |only ggseg.formats-0.0.3/ggseg.formats/man/as_polygon_atlas.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/as_sf_atlas.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/aseg.Rd | 1 ggseg.formats-0.0.3/ggseg.formats/man/atlas_geom.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/atlas_geometry_type.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/atlas_labels.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/atlas_manipulation.Rd | 77 + ggseg.formats-0.0.3/ggseg.formats/man/atlas_meshes.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/atlas_palette.Rd | 7 ggseg.formats-0.0.3/ggseg.formats/man/atlas_polygons.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/atlas_regions.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/atlas_sf.Rd | 6 ggseg.formats-0.0.3/ggseg.formats/man/atlas_type.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/atlas_vertices.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/atlas_views.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/convert_legacy_brain_atlas.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/dk.Rd | 1 ggseg.formats-0.0.3/ggseg.formats/man/figures/README-plot-aseg-1.png |binary ggseg.formats-0.0.3/ggseg.formats/man/figures/README-plot-dk-1.png |binary ggseg.formats-0.0.3/ggseg.formats/man/figures/README-plot-suit-1.png |only ggseg.formats-0.0.3/ggseg.formats/man/figures/README-plot-tracula-1.png |binary ggseg.formats-0.0.3/ggseg.formats/man/figures/README-subset-aseg-1.png |binary ggseg.formats-0.0.3/ggseg.formats/man/figures/logo.png |only ggseg.formats-0.0.3/ggseg.formats/man/get_brain_mesh.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/get_cerebellar_mesh.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/ggseg.formats-package.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/ggseg_data_cerebellar.Rd | 20 ggseg.formats-0.0.3/ggseg.formats/man/ggseg_data_cortical.Rd | 14 ggseg.formats-0.0.3/ggseg.formats/man/ggseg_data_subcortical.Rd | 14 ggseg.formats-0.0.3/ggseg.formats/man/ggseg_data_tract.Rd | 15 ggseg.formats-0.0.3/ggseg.formats/man/migrate_atlas_files.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/polygons_to_sf.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/read_atlas_files.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/read_freesurfer_stats.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/read_freesurfer_table.Rd | 2 ggseg.formats-0.0.3/ggseg.formats/man/sf_to_polygons.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/suit.Rd |only ggseg.formats-0.0.3/ggseg.formats/man/tracula.Rd | 3 ggseg.formats-0.0.3/ggseg.formats/tests/testthat/helper-graphics.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlas_accessors.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlas_convert.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlas_polygon_converters.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlas_polygon_ops.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlas_polygons.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlas_utils.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-atlases.R | 43 ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-brain_mesh.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-coercion.R | 32 ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-compat_dataframe.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-ggseg-atlas-plots.R | 125 +- ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-ggseg.formats_package.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-ggseg_atlas.R | 319 ++++- ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-ggseg_atlas_data.R | 116 +- ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-migrate_atlas_files.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-read_freesurfer.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-reposition-parity.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-sf_availability.R |only ggseg.formats-0.0.3/ggseg.formats/tests/testthat/test-validation.R | 63 - ggseg.formats-0.0.3/ggseg.formats/vignettes/atlas-manipulation.Rmd | 4 ggseg.formats-0.0.3/ggseg.formats/vignettes/ggseg.formats.Rmd | 8 ggseg.formats-0.0.3/ggseg.formats/vignettes/migrating-atlases.Rmd |only 107 files changed, 2341 insertions(+), 1035 deletions(-)
Title: Access 'umwelt.info' API
Description: Provides an R-based access to the datasets including their
resources from the portal <https://umwelt.info>. The package allows for
an easy integration of those datasets into your R-based workflows. The
functionality of the package mirrors the web-based access as provided
at <https://umwelt.info>. You can use the same queries and get the same
datasets by accessing our API.
Author: Johannes Vogel [aut, cre],
Maximilian Berthold [aut],
Luise Quoss [ctb],
Nationales Zentrum fuer Umwelt- und Naturschutzinformationen [cph]
Maintainer: Johannes Vogel <johannes.vogel@uba.de>
Diff between umweltapir versions 0.1.0 dated 2026-04-21 and 0.2.0 dated 2026-06-18
DESCRIPTION | 16 +++--- MD5 | 20 ++++---- NAMESPACE | 1 NEWS.md | 12 ++++ R/download_resources.R | 33 +++++++++---- R/fetch_api.R | 99 +++++++++++++++++++++++++--------------- README.md | 22 +++++--- man/download_resources.Rd | 13 ++--- man/fetch_data.Rd | 17 ++++-- man/umweltapir-package.Rd | 3 - tests/testthat/test-fetch_api.R | 67 +++++++++++++++++++++++++-- 11 files changed, 213 insertions(+), 90 deletions(-)
Title: Parse 'Tableau' Workbooks into Tidy Data and Dependency Graphs
Description: High-performance parsing of 'Tableau' workbook files into
tidy data frames and dependency graphs for other visualization tools
like R 'Shiny' or 'Power BI' replication, plus an interactive 'Shiny'
workbook inspector for uploaded .twb and .twbx files.
Author: George Arthur [aut, cre]
Maintainer: George Arthur <prigasgenthian48@gmail.com>
Diff between twbparser versions 0.4.0 dated 2026-04-13 and 0.5.0 dated 2026-06-18
DESCRIPTION | 15 - MD5 | 47 +-- NAMESPACE | 5 NEWS.md | 159 ++++++----- R/active-bindings.R | 9 R/analytics.R | 327 +++++++++++++++++------ R/app.R |only R/datasources.R | 28 + R/formatting.R |only R/insights.R | 13 R/report.R |only R/twb_parser.R | 52 ++- R/utils.R | 11 README.md | 449 +++++++++++++++++--------------- inst/WORDLIST | 39 +- inst/doc/twbparser-intro.html | 101 +++++-- inst/shiny |only man/TwbParser.Rd | 8 man/extract_datasource_details.Rd | 6 man/run_twbparser_app.Rd |only man/safe_call.Rd | 8 man/twb_dashboard_size.Rd |only man/twb_formatting.Rd |only man/twb_replication_brief.Rd | 4 man/twb_tooltips.Rd |only tests/testthat/test-active-bindings.R | 39 ++ tests/testthat/test-analytics.R | 49 ++- tests/testthat/test-dashboard-details.R | 10 tests/testthat/test-formatting.R |only 29 files changed, 904 insertions(+), 475 deletions(-)
Title: Processing of Accelerometry Data with 'GGIR' in mMARCH
Description: Mobile Motor Activity Research Consortium for Health (mMARCH) is a collaborative network of studies of clinical and community samples that employ common clinical, biological, and digital mobile measures across involved studies. One of the main scientific goals of mMARCH sites is developing a better understanding of the inter-relationships between accelerometry-measured physical activity (PA), sleep (SL), and circadian rhythmicity (CR) and mental and physical health in children, adolescents, and adults. Currently, there is no consensus on a standard procedure for a data processing pipeline of raw accelerometry data, and few open-source tools to facilitate their development. The R package 'GGIR' is the most prominent open-source software package that offers great functionality and tremendous user flexibility to process raw accelerometry data. However, even with 'GGIR', processing done in a harmonized and reproducible fashion requires a non-trivial amount of expertise combined with a care [...truncated...]
Author: Wei Guo [aut, cre],
Andrew Leroux [aut],
Vadim Zipunnikov [aut],
Kathleen Merikangas [aut]
Maintainer: Wei Guo <wei.guo3@nih.gov>
This is a re-admission after prior archival of version 3.3.4.0 dated 2026-02-05
Diff between mMARCH.AC versions 3.3.4.0 dated 2026-02-05 and 3.3.4.3 dated 2026-06-18
mMARCH.AC-3.3.4.0/mMARCH.AC/man/get_mean_sd_hour.Rd |only mMARCH.AC-3.3.4.3/mMARCH.AC/DESCRIPTION | 11 mMARCH.AC-3.3.4.3/mMARCH.AC/MD5 | 46 - mMARCH.AC-3.3.4.3/mMARCH.AC/NAMESPACE | 6 mMARCH.AC-3.3.4.3/mMARCH.AC/R/RA2.R | 73 -- mMARCH.AC-3.3.4.3/mMARCH.AC/R/Time2.R | 12 mMARCH.AC-3.3.4.3/mMARCH.AC/R/circular_time_mean_sd.R |only mMARCH.AC-3.3.4.3/mMARCH.AC/R/fragmentation2.R | 67 + mMARCH.AC-3.3.4.3/mMARCH.AC/R/module0_maincall.R | 8 mMARCH.AC-3.3.4.3/mMARCH.AC/build/vignette.rds |binary mMARCH.AC-3.3.4.3/mMARCH.AC/inst/doc/features.dictionary.xlsx |binary mMARCH.AC-3.3.4.3/mMARCH.AC/inst/doc/mMARCH.AC.Rmd | 2 mMARCH.AC-3.3.4.3/mMARCH.AC/inst/doc/mMARCH.AC.html | 22 mMARCH.AC-3.3.4.3/mMARCH.AC/inst/doc/mMARCH.AC.output.description.xlsx |binary mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/features.dictionary.xlsx |binary mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/module5_Data_process_report.Rmd | 227 +++--- mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/module6_NonWear.report.Rmd | 131 ++- mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/module7a_calculate_newfeatures.Rmd | 273 +++++--- mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/module7b_merge_GGIRfeatures.Rmd | 339 ++++++---- mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/module7c_runJIVE.Rmd | 195 ++++- mMARCH.AC-3.3.4.3/mMARCH.AC/inst/template/module7d_calculate_WD_WE_avg_features.Rmd | 309 ++++++--- mMARCH.AC-3.3.4.3/mMARCH.AC/man/circular_hour_center.Rd |only mMARCH.AC-3.3.4.3/mMARCH.AC/man/circular_time_mean_sd.Rd |only mMARCH.AC-3.3.4.3/mMARCH.AC/man/fragmentation2.Rd | 5 mMARCH.AC-3.3.4.3/mMARCH.AC/vignettes/mMARCH.AC.Rmd | 2 mMARCH.AC-3.3.4.3/mMARCH.AC/vignettes/mMARCH.AC.output.description.xlsx |binary 26 files changed, 1070 insertions(+), 658 deletions(-)
Title: Transforms Statistical Measures Commonly Used for Meta-Analysis
Description: Helps calculate statistical values commonly used in meta-analysis. It provides several methods to compute different forms of standardized mean differences, as well as other values such as standard errors and standard deviations.
The methods used in this package are described in the following references:
Altman D G, Bland J M. (2011) <doi:10.1136/bmj.d2090>
Borenstein, M., Hedges, L.V., Higgins, J.P.T. and Rothstein, H.R. (2009) <doi:10.1002/9780470743386.ch4>
Chinn S. (2000) <doi:10.1002/1097-0258(20001130)19:22%3C3127::aid-sim784%3E3.0.co;2-m>
Cochrane Handbook (2011) <https://www.cochrane.org/authors/handbooks-and-manuals/handbook/archive/v5.1.0>
Cooper, H., Hedges, L. V., & Valentine, J. C. (2009) <https://psycnet.apa.org/record/2009-05060-000>
Cohen, J. (1977) <https://psycnet.apa.org/record/1987-98267-000>
Ellis, P.D. (2009) <https://www.psychometrica.de/effect_size.html>
Goulet-Pelletier, J.-C., & Cousineau, D. (2018) <doi:10.2 [...truncated...]
Author: Robert Emprechtinger [aut, cre] ,
Guido Schwarzer [aut] ,
Ulf Toelch [aut],
Guenther Schreder [aut],
Gerald Gartlehner [aut]
Maintainer: Robert Emprechtinger <emprechtinger@stateofhealth.at>
Diff between metaHelper versions 1.0.0 dated 2024-07-28 and 1.0.1 dated 2026-06-18
DESCRIPTION | 23 - LICENSE | 4 MD5 | 67 +- NEWS.md | 12 R/ARD.R | 138 +++--- R/CI_from_proportions.R | 88 +-- R/SD.R | 681 +++++++++++++++--------------- R/SE.R | 436 ++++++++++--------- R/SMD.R | 364 ++++++++-------- R/check_data.R | 100 ++-- R/extend_var.R | 36 - R/hedges_factor.R | 90 +-- R/t_calc.R | 32 - R/utils-pipe.R | 26 - R/z_calc.R | 28 - README.md |only build |only inst |only man/SD_M_n_pooled_from_groups.Rd | 10 man/SD_from_CI.Rd | 22 man/SD_from_SE.Rd | 16 man/SDp_from_CIp.Rd | 8 man/SDp_from_SEp.Rd | 25 - man/SE.SMD_from_OR.CI.Rd | 72 +-- man/SE_from_SD.Rd | 2 man/SEp_from_CIp.Rd | 81 +-- man/SEp_from_SDp.Rd | 64 +- man/SEp_from_TE.p.Rd | 40 + man/SMD_from_group.Rd | 82 +-- man/SMD_from_mean.Rd | 2 tests/testthat/test-ARD.R | 60 +- tests/testthat/test-CI_from_proportions.R | 28 - tests/testthat/test-SD.R | 149 +++--- tests/testthat/test-SE.R | 122 ++--- tests/testthat/test-SMD.R | 72 +-- vignettes |only 36 files changed, 1525 insertions(+), 1455 deletions(-)
Title: Fast Conversion and Querying of Danish Registers with 'Parquet'
Description: Converts large Danish register files ('sas7bdat') into 'Parquet'
format with year-based 'Hive' partitioning and chunked reading for
larger-than-memory files. Supports parallel conversion with a 'targets'
pipeline and reading those registers into 'DuckDB' tables for faster
querying and analyses.
Author: Signe Kirk Broedbaek [aut, cre] ,
Luke Johnston [aut] ,
Steno Diabetes Center Aarhus [cph],
Aarhus University [cph]
Maintainer: Signe Kirk Broedbaek <signekb@clin.au.dk>
Diff between fastreg versions 0.13.8 dated 2026-06-12 and 0.14.1 dated 2026-06-18
DESCRIPTION | 6 - MD5 | 28 ++++---- NEWS.md | 18 +++++ R/convert.R | 32 ++++++++- R/use.R | 2 inst/doc/design.html | 114 ++++++++------------------------ inst/doc/design.qmd | 134 ++++++++++++++------------------------ inst/doc/fastreg.R | 13 +++ inst/doc/fastreg.html | 136 ++++++++++++++++++++++++--------------- inst/doc/fastreg.qmd | 86 +++++++++++++++++++----- inst/template-conversion-log.qmd | 27 ++++++- man/convert.Rd | 11 +++ tests/testthat/test-convert.R | 56 +++++++++++++++- vignettes/design.qmd | 134 ++++++++++++++------------------------ vignettes/fastreg.qmd | 86 +++++++++++++++++++----- 15 files changed, 520 insertions(+), 363 deletions(-)
Title: The Eigenvalues Entropy as a Classifier Evaluation Measure
Description: The confusion matrix (CM) is used to get a classifier's
evaluation measure in order to select a method among many.
A stochastic matrix and its transformation are computed from
the CM. The eigenvalues of the transformed symmetric matrix
are used to get an entropy which appears to be a good
evaluation measure. Many other measures, commonly used, are
provided for comparison purpose.
Author: Doulaye Dembele [aut, cre]
Maintainer: Doulaye Dembele <doulaye@igbmc.fr>
Diff between eve versions 1.0 dated 2025-11-11 and 1.1 dated 2026-06-18
eve-1.0/eve/R/m2two.R |only eve-1.0/eve/man/m2two.Rd |only eve-1.1/eve/DESCRIPTION | 8 ++++---- eve-1.1/eve/MD5 | 28 ++++++++++++++++------------ eve-1.1/eve/NAMESPACE | 3 ++- eve-1.1/eve/R/eve.R | 9 +++++++-- eve-1.1/eve/R/eve.amat.R |only eve-1.1/eve/R/eve.bival.R | 6 ++++-- eve-1.1/eve/R/eve.bmat.R |only eve-1.1/eve/R/eve.bounds.R | 21 ++++++++++++--------- eve-1.1/eve/R/eve.eigens.R | 17 +++++++++-------- eve-1.1/eve/R/eve.mmatt.R | 16 ++++++++++------ eve-1.1/eve/R/m2two.a.R |only eve-1.1/eve/man/eve-package.Rd | 8 ++++---- eve-1.1/eve/man/eve.amat.Rd |only eve-1.1/eve/man/eve.bival.Rd | 5 +++-- eve-1.1/eve/man/eve.bmat.Rd |only eve-1.1/eve/man/eve.eigens.Rd | 5 ++--- eve-1.1/eve/man/m2two.a.Rd |only 19 files changed, 73 insertions(+), 53 deletions(-)
Title: Bayesian Rasch Analysis Using 'brms'
Description: Reproduces classic Rasch psychometric analysis features
using Bayesian item response theory models fitted with 'brms' following
Bürkner (2021) <doi:10.18637/jss.v100.i05> and Bürkner (2020) <doi:10.3390/jintelligence8010005>.
Supports both dichotomous and polytomous Rasch models.
Features include posterior predictive item fit, conditional infit, item-restscore
associations, person fit, differential item functioning, local dependence
assessment via Q3 residual correlations, dimensionality assessment with
residual principal components analysis, person-item targeting plots,
item category probability curves, and reliability using relative
measurement uncertainty following Bignardi et al. (2025) <doi:10.31234/osf.io/h54k8_v1>.
Author: Magnus Johansson [aut, cre] ,
Giacomo Bignardi [ctb] ,
Kristoffer Magnusson [ctb]
Maintainer: Magnus Johansson <pgmj@pm.me>
Diff between easyRaschBayes versions 0.2.0.1 dated 2026-04-23 and 0.3.0 dated 2026-06-18
DESCRIPTION | 19 +- MD5 | 29 ++- NAMESPACE | 18 ++ NEWS.md | 22 ++ R/brms_fitstats.R | 1 R/brms_hpcm.R |only R/person_parameters.R | 260 +++++++++++------------------------ R/post_helpers.R | 25 ++- README.md | 4 man/RMUreliability_hpcm.Rd |only man/easyRaschBayes-package.Rd | 3 man/hurdle_acat.Rd |only man/hurdle_acat_stanvars.Rd |only man/infit_statistic_hpcm.Rd |only man/item_parameters_hpcm.Rd |only man/log_lik_hurdle_acat.Rd |only man/person_parameters_hpcm.Rd |only man/plot_icc_hpcm.Rd |only man/plot_targeting_hpcm.Rd |only man/posterior_epred_hurdle_acat.Rd |only man/posterior_predict_hurdle_acat.Rd |only man/q3_statistic_hpcm.Rd |only 22 files changed, 186 insertions(+), 195 deletions(-)
More information about easyRaschBayes at CRAN
Permanent link
Title: Rank-Based Test to Evaluate a Surrogate Marker
Description: Uses a novel rank-based nonparametric approach to evaluate a surrogate marker
in a small sample size setting. Details are described in Parast et al (2024)
<doi:10.1093/biomtc/ujad035>, in Hughes A et al (2025)
<doi:10.1002/sim.70241>, and in Hughes A et al (2026) <doi:10.48550/arXiv.2605.03819>. A tutorial for this package can be found at
<https://www.laylaparast.com/surrogaterank> and a Shiny App
implementing the package can be found at
<https://parastlab.shinyapps.io/SurrogateRankApp/>.
Author: Layla Parast [aut, cre],
Arthur Hughes [aut]
Maintainer: Layla Parast <parast@austin.utexas.edu>
Diff between SurrogateRank versions 2.2 dated 2026-01-07 and 3.0 dated 2026-06-18
DESCRIPTION | 16 ++-- MD5 | 56 ++++++++++----- NAMESPACE | 15 +++- R/delta.calculate.extension.R | 6 + R/delta.reml.meta.R |only R/est.power.R | 6 - R/example.data.highdim.multistudy.R |only R/example.data.highdim.multistudy.ipd.R |only R/generate.example.data.highdim.R |only R/generate.example.data.highdim.multistudy.R |only R/generate.example.data.highdim.multistudy.ipd.R |only R/globals.R | 71 ++++++++++++++++++-- R/rise.evaluate.R | 6 - R/rise.evaluate.meta.R |only R/rise.screen.R | 41 +++++++++-- R/rise.screen.meta.R |only R/ss_functions.R | 12 +-- R/test.surrogate.extension.R | 5 - R/test.surrogate.rise.R | 6 - data/example.data.highdim.RData |binary data/example.data.highdim.multistudy.RData |only data/example.data.highdim.multistudy.ipd.RData |only man/delta.calculate.extension.Rd | 16 +++- man/delta.reml.meta.Rd |only man/est.power.Rd | 5 + man/example.data.highdim.Rd | 11 +-- man/example.data.highdim.multistudy.Rd |only man/example.data.highdim.multistudy.ipd.Rd |only man/generate.example.data.highdim.Rd |only man/generate.example.data.highdim.multistudy.Rd |only man/generate.example.data.highdim.multistudy.ipd.Rd |only man/rise.evaluate.Rd | 30 +++----- man/rise.evaluate.meta.Rd |only man/rise.screen.Rd | 19 +---- man/rise.screen.meta.Rd |only man/test.surrogate.Rd | 5 + man/test.surrogate.extension.Rd | 11 +-- man/test.surrogate.rise.Rd | 19 +---- 38 files changed, 242 insertions(+), 114 deletions(-)
Title: Concise and Efficient Tools for Everyday Statistical Production
Description: A set of concise and efficient tools for statistical production. Can also be used for data management.
In statistical production, you deal with complex data and need to control your process at each step of your work.
Concise functions are very helpful, because you do not hesitate to use them.
The following functions are included in the package.
'dup' checks duplicates.
'miss' checks missing values.
'tac' computes contingency table of all columns.
'toc' compares two tables, spotting significant deviations.
'chi2_find' compares columns within a data.frame, spotting related categories of (a more complex function).
Author: Vincent Reduron [cre, aut]
Maintainer: Vincent Reduron <vincent.reduron@laposte.net>
Diff between ProduceR versions 1.2 dated 2026-05-19 and 1.3 dated 2026-06-18
DESCRIPTION | 6 +++--- MD5 | 13 +++++++------ NEWS.md | 12 ++++++++++++ R/chi2_find.R | 42 ++++++++++++++++++++++-------------------- R/sums.R |only R/tac.R | 9 +++++---- R/utils.R | 3 ++- man/tac.Rd | 3 +++ 8 files changed, 54 insertions(+), 34 deletions(-)
More information about fable.intermittent at CRAN
Permanent link
Title: Ecological Trajectory Analysis
Description: Analysis of temporal changes (i.e. dynamics) of ecological entities, defined as trajectories on a chosen multivariate space, by providing a set of
trajectory metrics and visual representations [De Caceres et al. (2019) <doi:10.1002/ecm.1350>;
and Sturbois et al. (2021) <doi:10.1016/j.ecolmodel.2020.109400>; Djeghri et al. (2026a) <doi:10.1002/ecm.70058>; Djeghri et al. (2026b) <doi:10.24072/pcjournal.736>]. Includes functions
to estimate metrics for individual trajectories (length, directionality, angles, ...) as well as
metrics to relate pairs of trajectories (dissimilarity and convergence). Functions are also
provided to estimate the ecological quality of ecosystem with respect to reference conditions
[Sturbois et al. (2023) <doi:10.1002/ecs2.4726>].
Author: Miquel De Caceres [aut, cre] ,
Nicolas Djeghri [aut] ,
Anthony Sturbois [aut] ,
Javier De la Casa [ctb]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between ecotraj versions 1.2.0 dated 2025-11-11 and 1.2.2 dated 2026-06-18
DESCRIPTION | 13 +- MD5 | 52 ++++----- NAMESPACE | 1 NEWS.md | 9 + R/ecotraj-package.R | 2 R/is.synchronous.R | 4 R/trajectoryComparison.R | 14 ++ R/trajectoryConvergencePlot.R | 2 R/trajectoryCyclical.R | 135 ++++++++++++++++--------- R/trajectoryCyclicalPlots.R | 2 R/trajectoryRMA.R | 21 ++- R/trajectoryRMAPlot.R | 52 +++++---- R/transformTrajectories.R | 156 ++++++++++++++++++++++++++--- build/partial.rdb |binary inst/CITATION | 34 +++++- man/ecotraj-package.Rd | 2 man/is.synchronous.Rd | 2 man/trajectoryComparison.Rd | 2 man/trajectoryConvergencePlot.Rd | 2 man/trajectoryCyclical.Rd | 15 ++ man/trajectoryCyclicalPlots.Rd | 2 man/trajectoryRMA.Rd | 12 +- man/trajectoryRMAPlot.Rd | 2 man/transformTrajectories.Rd | 34 +++++- tests/testthat/test_CETA.R | 21 +++ tests/testthat/test_ETA.R | 6 + tests/testthat/test_TrajectoryDefinition.R | 2 27 files changed, 441 insertions(+), 158 deletions(-)
Title: Polyhedra Database
Description: A polyhedra database scraped from various sources as R6 objects and 'rgl' visualizing capabilities.
Author: Alejandro Baranek [aut, com, cre, cph],
Leonardo Belen [aut, com, cph],
qbotics [cph],
Barret Schloerke [rev],
Lijia Yu [rev]
Maintainer: Alejandro Baranek <abaranek@dc.uba.ar>
This is a re-admission after prior archival of version 0.5.6 dated 2024-11-06
Diff between Rpolyhedra versions 0.5.6 dated 2024-11-06 and 0.6.0 dated 2026-06-18
DESCRIPTION | 11 MD5 | 284 R/package-lib.R | 3 R/polyhedra-lib.R | 2 R/test-lib.R | 38 README.md | 420 - build/vignette.rds |binary inst/doc/Rpolyhedra.R | 4 inst/doc/Rpolyhedra.Rmd | 178 inst/doc/Rpolyhedra.html | 7946 ++++++++++++++++++++++- inst/extdata/polyhedra.RDS |binary inst/extdata/polyhedra/dmccooey/1b53af19.RDS.zip |binary inst/extdata/polyhedra/dmccooey/2d13193a.RDS.zip |binary inst/extdata/polyhedra/dmccooey/75a525aa.RDS.zip |binary inst/extdata/polyhedra/dmccooey/98d9147f.RDS.zip |binary inst/extdata/polyhedra/dmccooey/9cfe921d.RDS.zip |binary inst/extdata/polyhedra/dmccooey/b844f693.RDS.zip |binary inst/extdata/polyhedra/dmccooey/c26dab1e.RDS.zip |binary inst/extdata/polyhedra/dmccooey/c2ed6fc0.RDS.zip |binary inst/extdata/polyhedra/dmccooey/cecb7eda.RDS.zip |binary inst/extdata/polyhedra/netlib/011e6aa5.RDS.zip |binary inst/extdata/polyhedra/netlib/013c8d56.RDS.zip |binary inst/extdata/polyhedra/netlib/018facb1.RDS.zip |binary inst/extdata/polyhedra/netlib/02bf6e28.RDS.zip |binary inst/extdata/polyhedra/netlib/049fcc28.RDS.zip |binary inst/extdata/polyhedra/netlib/06592c44.RDS.zip |binary inst/extdata/polyhedra/netlib/06678c92.RDS.zip |binary inst/extdata/polyhedra/netlib/0bea582b.RDS.zip |binary inst/extdata/polyhedra/netlib/1151cc88.RDS.zip |binary inst/extdata/polyhedra/netlib/135d3b3b.RDS.zip |binary inst/extdata/polyhedra/netlib/13811592.RDS.zip |binary inst/extdata/polyhedra/netlib/15cafb47.RDS.zip |binary inst/extdata/polyhedra/netlib/162e6ada.RDS.zip |binary inst/extdata/polyhedra/netlib/16bc8c3a.RDS.zip |binary inst/extdata/polyhedra/netlib/1834f5c8.RDS.zip |binary inst/extdata/polyhedra/netlib/1cecd28f.RDS.zip |binary inst/extdata/polyhedra/netlib/1ed7c4eb.RDS.zip |binary inst/extdata/polyhedra/netlib/1f94cbba.RDS.zip |binary inst/extdata/polyhedra/netlib/2120e77b.RDS.zip |binary inst/extdata/polyhedra/netlib/249171d0.RDS.zip |binary inst/extdata/polyhedra/netlib/249e5125.RDS.zip |binary inst/extdata/polyhedra/netlib/254037c6.RDS.zip |binary inst/extdata/polyhedra/netlib/25ea7772.RDS.zip |binary inst/extdata/polyhedra/netlib/265d43e2.RDS.zip |binary inst/extdata/polyhedra/netlib/275a5b5b.RDS.zip |binary inst/extdata/polyhedra/netlib/27ea68b1.RDS.zip |binary inst/extdata/polyhedra/netlib/2be179dc.RDS.zip |binary inst/extdata/polyhedra/netlib/3346351c.RDS.zip |binary inst/extdata/polyhedra/netlib/3435c65e.RDS.zip |binary inst/extdata/polyhedra/netlib/34543164.RDS.zip |binary inst/extdata/polyhedra/netlib/346c21b0.RDS.zip |binary inst/extdata/polyhedra/netlib/34fe1260.RDS.zip |binary inst/extdata/polyhedra/netlib/35a6eff7.RDS.zip |binary inst/extdata/polyhedra/netlib/35db309a.RDS.zip |binary inst/extdata/polyhedra/netlib/369ad7b5.RDS.zip |binary inst/extdata/polyhedra/netlib/3bc5094f.RDS.zip |binary inst/extdata/polyhedra/netlib/3c4269ff.RDS.zip |binary inst/extdata/polyhedra/netlib/3d52d6c8.RDS.zip |binary inst/extdata/polyhedra/netlib/41ad8983.RDS.zip |binary inst/extdata/polyhedra/netlib/4437a6ca.RDS.zip |binary inst/extdata/polyhedra/netlib/463c0548.RDS.zip |binary inst/extdata/polyhedra/netlib/4b857767.RDS.zip |binary inst/extdata/polyhedra/netlib/53052db5.RDS.zip |binary inst/extdata/polyhedra/netlib/558ff660.RDS.zip |binary inst/extdata/polyhedra/netlib/5c2b6919.RDS.zip |binary inst/extdata/polyhedra/netlib/61116952.RDS.zip |binary inst/extdata/polyhedra/netlib/64b18a31.RDS.zip |binary inst/extdata/polyhedra/netlib/65a81360.RDS.zip |binary inst/extdata/polyhedra/netlib/65e51458.RDS.zip |binary inst/extdata/polyhedra/netlib/6879c873.RDS.zip |binary inst/extdata/polyhedra/netlib/69383818.RDS.zip |binary inst/extdata/polyhedra/netlib/6a8c3470.RDS.zip |binary inst/extdata/polyhedra/netlib/6b18eb73.RDS.zip |binary inst/extdata/polyhedra/netlib/7512b922.RDS.zip |binary inst/extdata/polyhedra/netlib/75be1c96.RDS.zip |binary inst/extdata/polyhedra/netlib/7635b688.RDS.zip |binary inst/extdata/polyhedra/netlib/7740b215.RDS.zip |binary inst/extdata/polyhedra/netlib/7b4af8a0.RDS.zip |binary inst/extdata/polyhedra/netlib/7b6d0744.RDS.zip |binary inst/extdata/polyhedra/netlib/81d5378a.RDS.zip |binary inst/extdata/polyhedra/netlib/822a6cae.RDS.zip |binary inst/extdata/polyhedra/netlib/8726b2d6.RDS.zip |binary inst/extdata/polyhedra/netlib/92006619.RDS.zip |binary inst/extdata/polyhedra/netlib/92add8a6.RDS.zip |binary inst/extdata/polyhedra/netlib/9ae4c50c.RDS.zip |binary inst/extdata/polyhedra/netlib/9b01d03f.RDS.zip |binary inst/extdata/polyhedra/netlib/9bc04794.RDS.zip |binary inst/extdata/polyhedra/netlib/9d826ad9.RDS.zip |binary inst/extdata/polyhedra/netlib/9f5c91aa.RDS.zip |binary inst/extdata/polyhedra/netlib/a2e04824.RDS.zip |binary inst/extdata/polyhedra/netlib/a47e4645.RDS.zip |binary inst/extdata/polyhedra/netlib/a4dc42bf.RDS.zip |binary inst/extdata/polyhedra/netlib/a4e2664a.RDS.zip |binary inst/extdata/polyhedra/netlib/a6a91780.RDS.zip |binary inst/extdata/polyhedra/netlib/a8df0712.RDS.zip |binary inst/extdata/polyhedra/netlib/aed25469.RDS.zip |binary inst/extdata/polyhedra/netlib/b0f480ed.RDS.zip |binary inst/extdata/polyhedra/netlib/b4fa93d6.RDS.zip |binary inst/extdata/polyhedra/netlib/b515817d.RDS.zip |binary inst/extdata/polyhedra/netlib/b634e818.RDS.zip |binary inst/extdata/polyhedra/netlib/b7034094.RDS.zip |binary inst/extdata/polyhedra/netlib/bb6dd324.RDS.zip |binary inst/extdata/polyhedra/netlib/bbbfe93f.RDS.zip |binary inst/extdata/polyhedra/netlib/bcabaf81.RDS.zip |binary inst/extdata/polyhedra/netlib/bd38db04.RDS.zip |binary inst/extdata/polyhedra/netlib/c05b78f2.RDS.zip |binary inst/extdata/polyhedra/netlib/c17b0137.RDS.zip |binary inst/extdata/polyhedra/netlib/c301260e.RDS.zip |binary inst/extdata/polyhedra/netlib/c677f079.RDS.zip |binary inst/extdata/polyhedra/netlib/c9954f75.RDS.zip |binary inst/extdata/polyhedra/netlib/cbcb4124.RDS.zip |binary inst/extdata/polyhedra/netlib/cbcffbb9.RDS.zip |binary inst/extdata/polyhedra/netlib/cbdc1cef.RDS.zip |binary inst/extdata/polyhedra/netlib/ce24aaa5.RDS.zip |binary inst/extdata/polyhedra/netlib/cf4e183c.RDS.zip |binary inst/extdata/polyhedra/netlib/d0af0bc9.RDS.zip |binary inst/extdata/polyhedra/netlib/d484e616.RDS.zip |binary inst/extdata/polyhedra/netlib/d685b90c.RDS.zip |binary inst/extdata/polyhedra/netlib/d94f33b9.RDS.zip |binary inst/extdata/polyhedra/netlib/d9998a7b.RDS.zip |binary inst/extdata/polyhedra/netlib/dc9fa583.RDS.zip |binary inst/extdata/polyhedra/netlib/dde7ac72.RDS.zip |binary inst/extdata/polyhedra/netlib/de7688cc.RDS.zip |binary inst/extdata/polyhedra/netlib/e0c587d5.RDS.zip |binary inst/extdata/polyhedra/netlib/e18d5c68.RDS.zip |binary inst/extdata/polyhedra/netlib/e3d9b0db.RDS.zip |binary inst/extdata/polyhedra/netlib/e5fa243c.RDS.zip |binary inst/extdata/polyhedra/netlib/e9a22c75.RDS.zip |binary inst/extdata/polyhedra/netlib/edfd962d.RDS.zip |binary inst/extdata/polyhedra/netlib/eff7e53b.RDS.zip |binary inst/extdata/polyhedra/netlib/f3295a93.RDS.zip |binary inst/extdata/polyhedra/netlib/f399e005.RDS.zip |binary inst/extdata/polyhedra/netlib/f4091898.RDS.zip |binary inst/extdata/polyhedra/netlib/f7071c7d.RDS.zip |binary inst/extdata/polyhedra/netlib/f8a1789b.RDS.zip |binary inst/extdata/polyhedra/netlib/f95d36c6.RDS.zip |binary inst/extdata/polyhedra/netlib/fa1459bf.RDS.zip |binary inst/extdata/polyhedra/netlib/fe70d311.RDS.zip |binary inst/extdata/polyhedra/netlib/ff3a53a7.RDS.zip |binary inst/extdata/version | 2 tests/testthat/test_package_lib.R | 138 tests/testthat/test_polyhedra_lib.R | 4 vignettes/Rpolyhedra.Rmd | 178 143 files changed, 8548 insertions(+), 660 deletions(-)
Title: Query 'SWI'-'Prolog' from R
Description: This R package connects to SWI-Prolog, <https://www.swi-prolog.org/>, so that R can send deterministic and non-deterministic queries to prolog (consult, query/submit, once, findall).
Author: Matthias Gondan [aut, com, cre] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
This is a re-admission after prior archival of version 0.9.26 dated 2026-04-21
Diff between rolog versions 0.9.26 dated 2026-04-21 and 0.9.27 dated 2026-06-18
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/plbase.R | 30 ++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/rolog.html | 15 ++++++++------- 6 files changed, 42 insertions(+), 27 deletions(-)
Title: A Lightweight Interface to NYC Open Data APIs
Description: Provides a unified set of helper functions to access datasets
from the NYC Open Data platform <https://opendata.cityofnewyork.us/>.
Functions return results as tidy tibbles and support optional filtering,
sorting, and row limits via the Socrata API. The package includes endpoints
for 311 service requests, DOB job applications, juvenile justice metrics,
school safety, environmental data, event permitting, and additional citywide datasets.
Author: Christian Martinez [aut, cre] ,
Crystal Adote [ctb] ,
Jonah Dratfield [ctb] ,
Joyce Escatel-Flores [ctb] ,
Rob Hutto [ctb] ,
Isley Jean-Pierre [ctb] ,
Shannon Joyce [ctb] ,
Laura Rose-Werner [ctb] ,
Emma Tupone [ctb] ,
Xinru Wang [ctb]
Maintainer: Christian Martinez <c.martinez0@outlook.com>
This is a re-admission after prior archival of version 0.2.1 dated 2026-04-11
Diff between nycOpenData versions 0.2.1 dated 2026-04-11 and 0.2.2 dated 2026-06-18
nycOpenData-0.2.1/nycOpenData/inst/doc/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/Using-Local-Law18-Pay-Report.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/Using-Local-Law18-Pay-Report.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/Using-Local-Law18-Pay-Report.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc-borough-population.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc-borough-population.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc-borough-population.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc-shooting-incidents.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc-shooting-incidents.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc-shooting-incidents.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc_events_sealevel.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc_events_sealevel.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc_events_sealevel.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc_wetlands.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc_wetlands.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/analyzing-nyc_wetlands.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/investigating-inmate-incidents.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/investigating-inmate-incidents.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/investigating-inmate-incidents.html |only nycOpenData-0.2.1/nycOpenData/inst/doc/nyc_ha_violations.R |only nycOpenData-0.2.1/nycOpenData/inst/doc/nyc_ha_violations.Rmd |only nycOpenData-0.2.1/nycOpenData/inst/doc/nyc_ha_violations.html |only nycOpenData-0.2.1/nycOpenData/tests |only nycOpenData-0.2.1/nycOpenData/vignettes/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/Using-Local-Law18-Pay-Report.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/analyzing-nyc-borough-population.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/analyzing-nyc-shooting-incidents.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/analyzing-nyc_events_sealevel.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/analyzing-nyc_wetlands.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/investigating-inmate-incidents.Rmd |only nycOpenData-0.2.1/nycOpenData/vignettes/nyc_ha_violations.Rmd |only nycOpenData-0.2.2/nycOpenData/DESCRIPTION | 8 nycOpenData-0.2.2/nycOpenData/MD5 | 68 -- nycOpenData-0.2.2/nycOpenData/NEWS.md | 59 + nycOpenData-0.2.2/nycOpenData/R/nyc_any_dataset.R | 52 + nycOpenData-0.2.2/nycOpenData/R/nyc_list_datasets.R | 38 - nycOpenData-0.2.2/nycOpenData/R/nyc_pull_dataset.R | 117 ++- nycOpenData-0.2.2/nycOpenData/README.md | 311 +++++++--- nycOpenData-0.2.2/nycOpenData/build/vignette.rds |binary nycOpenData-0.2.2/nycOpenData/inst/CITATION | 4 nycOpenData-0.2.2/nycOpenData/inst/doc/getting-started.R | 8 nycOpenData-0.2.2/nycOpenData/inst/doc/getting-started.Rmd | 45 + nycOpenData-0.2.2/nycOpenData/inst/doc/getting-started.html | 98 +-- nycOpenData-0.2.2/nycOpenData/man/nyc_any_dataset.Rd | 52 + nycOpenData-0.2.2/nycOpenData/man/nyc_list_datasets.Rd | 37 - nycOpenData-0.2.2/nycOpenData/man/nyc_pull_dataset.Rd | 138 +++- nycOpenData-0.2.2/nycOpenData/vignettes/getting-started.Rmd | 45 + 49 files changed, 762 insertions(+), 318 deletions(-)
Title: Automatically Fetching References Metadata from Literature
Databases
Description: Provides functions to automatically retrieve and deduplicate reference metadata based on saved search strings. Access to Web of Science and Scopus requires personal API keys, while PubMed can be queried without one. The optional deduplication functionality requires the package 'ASySD' available from <https://github.com/camaradesuk/ASySD>.
Author: Thomas Dumond [cre, aut, cph] ,
Charles Caraguel [ctb] ,
Torben Nielsen [ctb]
Maintainer: Thomas Dumond <thomas.dumond@adelaide.edu.au>
Diff between LitFetchR versions 0.2.2 dated 2026-04-14 and 1.0.0 dated 2026-06-18
DESCRIPTION | 8 MD5 | 46 +-- NEWS.md | 43 +++ R/create_id_history.R | 21 + R/create_save_search.R | 130 ++++----- R/create_search_history.R | 33 -- R/dedup_refs.R | 2 R/extract_pmd_list.R | 295 ++++++++++----------- R/extract_scp_list.R | 552 ++++++++++++++++----------------------- R/extract_wos_list.R | 631 ++++++++++++++++++++++++++++----------------- R/http_helper.R | 51 ++- R/manual_fetch.R | 53 +-- R/save_api_key.R | 18 - inst/doc/Get_API_keys.Rmd | 4 inst/doc/Get_API_keys.html | 10 inst/doc/LitFetchr.R | 5 inst/doc/LitFetchr.Rmd | 15 + inst/doc/LitFetchr.html | 140 +++++---- man/extract_pmd_list.Rd | 4 man/extract_scp_list.Rd | 4 man/extract_wos_list.Rd | 6 man/save_api_keys.Rd | 20 + vignettes/Get_API_keys.Rmd | 4 vignettes/LitFetchr.Rmd | 15 + 24 files changed, 1177 insertions(+), 933 deletions(-)
Title: Shrinkage Estimation Methods for Vector Autoregressive Models
Description: Vector autoregressive (VAR) model is a fundamental and effective approach
for multivariate time series analysis. Shrinkage estimation methods can be
applied to high-dimensional VAR models with dimensionality greater than
the number of observations, contrary to the standard ordinary least squares
method. This package is an integrative package delivering nonparametric,
parametric, and semiparametric methods in a unified and consistent manner,
such as the multivariate ridge regression in Golub, Heath, and Wahba (1979)
<doi:10.2307/1268518>, a James-Stein type nonparametric shrinkage method in
Opgen-Rhein and Strimmer (2007) <doi:10.1186/1471-2105-8-S2-S3>, and
Bayesian estimation methods using noninformative and informative priors
in Lee, Choi, and S.-H. Kim (2016) <doi:10.1016/j.csda.2016.03.007> and
Ni and Sun (2005) <doi:10.1198/073500104000000622>.
Author: Namgil Lee [aut, cre, cph] ,
Heon Young Yang [ctb],
Sung-Ho Kim [aut, cph]
Maintainer: Namgil Lee <namgil.lee@kangwon.ac.kr>
Diff between VARshrink versions 0.3.3 dated 2026-01-09 and 0.5.0 dated 2026-06-18
VARshrink-0.3.3/VARshrink/R/calcSSE_Acoef.R |only VARshrink-0.3.3/VARshrink/R/causality_sh.R |only VARshrink-0.3.3/VARshrink/R/lm_full_Bayes_SR.R |only VARshrink-0.3.3/VARshrink/R/restrict_sh.R |only VARshrink-0.3.3/VARshrink/R/roots_sh.R |only VARshrink-0.3.3/VARshrink/man/calcSSE_Acoef.Rd |only VARshrink-0.3.3/VARshrink/man/causality_sh.Rd |only VARshrink-0.3.3/VARshrink/man/lm_full_Bayes_SR.Rd |only VARshrink-0.3.3/VARshrink/man/restrict_sh.Rd |only VARshrink-0.3.3/VARshrink/man/roots_sh.Rd |only VARshrink-0.5.0/VARshrink/DESCRIPTION | 18 VARshrink-0.5.0/VARshrink/MD5 | 55 - VARshrink-0.5.0/VARshrink/NAMESPACE | 5 VARshrink-0.5.0/VARshrink/R/Phi.varshrinkest.R | 2 VARshrink-0.5.0/VARshrink/R/Psi.varshrinkest.R | 18 VARshrink-0.5.0/VARshrink/R/VARshrink.R | 90 + VARshrink-0.5.0/VARshrink/R/convPsi2varresult.R | 19 VARshrink-0.5.0/VARshrink/R/irf.varshrinkest.R | 217 ++++ VARshrink-0.5.0/VARshrink/R/lm_full_Bayes.R |only VARshrink-0.5.0/VARshrink/R/serial.test_sh.R | 2 VARshrink-0.5.0/VARshrink/R/summary.varshrinkest.R | 5 VARshrink-0.5.0/VARshrink/README.md | 20 VARshrink-0.5.0/VARshrink/build/vignette.rds |binary VARshrink-0.5.0/VARshrink/inst/doc/article_html_varshrink.R | 60 - VARshrink-0.5.0/VARshrink/inst/doc/article_html_varshrink.Rmd | 217 +++- VARshrink-0.5.0/VARshrink/inst/doc/article_html_varshrink.html | 467 +++++----- VARshrink-0.5.0/VARshrink/man/Phi.varshrinkest.Rd | 2 VARshrink-0.5.0/VARshrink/man/Psi.varshrinkest.Rd |only VARshrink-0.5.0/VARshrink/man/VARshrink.Rd | 12 VARshrink-0.5.0/VARshrink/man/convPsi2varresult.Rd | 4 VARshrink-0.5.0/VARshrink/man/irf.varshrinkest.Rd | 20 VARshrink-0.5.0/VARshrink/man/lm_full_Bayes.Rd |only VARshrink-0.5.0/VARshrink/man/serial.test_sh.Rd | 2 VARshrink-0.5.0/VARshrink/man/summary.varshrinkest.Rd | 2 VARshrink-0.5.0/VARshrink/vignettes/article_html_varshrink.Rmd | 217 +++- 35 files changed, 991 insertions(+), 463 deletions(-)
Title: Multilevel Analysis of Individual Heterogeneity and
Discriminatory Accuracy
Description: Provides a comprehensive toolkit for conducting Multilevel Analysis
of Individual Heterogeneity and Discriminatory Accuracy (MAIHDA). Methods
are described in Merlo (2018) <doi:10.1016/j.socscimed.2017.12.026> and
Evans et al. (2018) <doi:10.1016/j.socscimed.2017.11.011>. Automatically
generates intersectional strata, fits analytical models, extracts statistics,
and produces visualizations.
Author: Hamid Bulut [aut, cre]
Maintainer: Hamid Bulut <me@hamidbulut.com>
Diff between MAIHDA versions 0.1.8 dated 2026-05-16 and 0.1.11 dated 2026-06-18
DESCRIPTION | 20 MD5 | 285 + NAMESPACE | 51 NEWS.md | 109 R/app_modules.R |only R/calculate_pvc.R | 700 ++-- R/compare_maihda.R | 1385 ++++++++ R/decompose_maihda.R |only R/design_weights.R |only R/discriminatory_accuracy.R |only R/fit_maihda.R | 853 ++++- R/information_criteria.R |only R/interactions.R |only R/longitudinal.R |only R/maihda_country_data.R |only R/maihda_health_data.R | 16 R/maihda_long_data.R |only R/maihda_sparse_data.R |only R/maihda_table.R |only R/maihda_ternary.R | 492 +-- R/maihda_workflow.R |only R/make_strata.R | 237 - R/ordinal_engine.R |only R/plot_maihda.R | 1252 ++++++- R/plot_prediction_deviation_panels.R | 690 ++-- R/predict_maihda.R | 221 - R/run_app.R | 682 +++- R/summary_maihda.R | 1125 ++++++ R/tidiers.R |only R/utils_maihda.R | 2764 ++++++++++++----- R/vpc_response.R |only README.md | 254 + build/vignette.rds |binary data/maihda_country_data.rda |only data/maihda_long_data.rda |only data/maihda_sparse_data.rda |only inst/CITATION | 26 inst/doc/bayesian_sparse_maihda.R |only inst/doc/bayesian_sparse_maihda.Rmd |only inst/doc/bayesian_sparse_maihda.html |only inst/doc/binary_outcomes.R |only inst/doc/binary_outcomes.Rmd |only inst/doc/binary_outcomes.html |only inst/doc/cross_classified.R |only inst/doc/cross_classified.Rmd |only inst/doc/cross_classified.html |only inst/doc/finding_interactions.R |only inst/doc/finding_interactions.Rmd |only inst/doc/finding_interactions.html |only inst/doc/group_comparison.R |only inst/doc/group_comparison.Rmd |only inst/doc/group_comparison.html |only inst/doc/interactive_app.Rmd | 10 inst/doc/interactive_app.html | 23 inst/doc/interpreting_plots.R |only inst/doc/interpreting_plots.Rmd |only inst/doc/interpreting_plots.html |only inst/doc/introduction.R | 162 inst/doc/introduction.Rmd | 338 +- inst/doc/introduction.html | 541 ++- inst/doc/longitudinal.R |only inst/doc/longitudinal.Rmd |only inst/doc/longitudinal.html |only inst/doc/planning_a_study.R |only inst/doc/planning_a_study.Rmd |only inst/doc/planning_a_study.html |only inst/doc/reporting_results.R |only inst/doc/reporting_results.Rmd |only inst/doc/reporting_results.html |only inst/examples/example_workflow.R | 28 inst/shiny/app.R | 1146 ++++--- inst/shiny/www |only man/MAIHDA-package.Rd | 52 man/add_stratum_labels.Rd | 40 man/bootstrap_cc.Rd |only man/bootstrap_context.Rd |only man/bootstrap_pvc.Rd | 48 man/bootstrap_vpc.Rd | 52 man/calculate_pvc.Rd | 163 - man/compare_maihda.Rd | 130 man/compare_maihda_groups.Rd |only man/compute_maihda_ternary_data.Rd | 3 man/extract_between_variance.Rd | 36 man/fit_maihda.Rd | 171 - man/maihda.Rd |only man/maihda_adjusted_formula.Rd |only man/maihda_adjusted_terms.Rd |only man/maihda_auc.Rd |only man/maihda_brms_weights_formula.Rd |only man/maihda_cc_summary_brms.Rd |only man/maihda_cc_summary_lme4.Rd |only man/maihda_clmm_linpred.Rd |only man/maihda_clmm_stratum_ranef.Rd |only man/maihda_clmm_thresholds.Rd |only man/maihda_clmm_variances.Rd |only man/maihda_compose_caption.Rd |only man/maihda_context_summary_brms.Rd |only man/maihda_context_summary_lme4.Rd |only man/maihda_country_data.Rd |only man/maihda_cross_classified_formula.Rd |only man/maihda_cumulative.Rd |only man/maihda_discriminatory_accuracy.Rd |only man/maihda_fit_clmm.Rd |only man/maihda_fit_wemix.Rd |only man/maihda_glance.Rd |only man/maihda_health_data.Rd | 8 man/maihda_ic.Rd |only man/maihda_ic_one.Rd |only man/maihda_interactions.Rd |only man/maihda_long_data.Rd |only man/maihda_longitudinal_adjusted_formula.Rd |only man/maihda_longitudinal_formula.Rd |only man/maihda_longitudinal_pcv.Rd |only man/maihda_longitudinal_strata_predictions.Rd |only man/maihda_longitudinal_summary_brms.Rd |only man/maihda_longitudinal_summary_lme4.Rd |only man/maihda_mor.Rd |only man/maihda_ordinal_category_probs.Rd |only man/maihda_ordinal_eta_to_score.Rd |only man/maihda_ordinal_expected_score.Rd |only man/maihda_prepare_brms_sampling_weights.Rd |only man/maihda_prepare_group_strata.Rd |only man/maihda_print_cc_decomposition.Rd |only man/maihda_print_context_partition.Rd |only man/maihda_sparse_data.Rd |only man/maihda_stratum_predictions_ordinal.Rd |only man/maihda_stratum_predictions_wemix.Rd |only man/maihda_table.Rd |only man/maihda_ternary_plot.Rd | 6 man/maihda_tidiers.Rd |only man/maihda_validate_longitudinal.Rd |only man/maihda_validate_sampling_weights.Rd |only man/maihda_vpc_response.Rd |only man/maihda_wemix_linpred.Rd |only man/maihda_wemix_stratum_ranef.Rd |only man/maihda_wemix_variances.Rd |only man/make_strata.Rd | 101 man/plot.maihda_analysis.Rd |only man/plot.maihda_comparison.Rd |only man/plot.maihda_group_comparison.Rd |only man/plot.maihda_model.Rd | 158 man/plot.maihda_ternary.Rd |only man/plot_comparison.Rd | 50 man/plot_context_vpc.Rd |only man/plot_effect_decomposition.Rd | 55 man/plot_group_comparison.Rd |only man/plot_maihda_ternary.Rd | 25 man/plot_obs_vs_shrunken.Rd | 49 man/plot_pcv_trajectory.Rd |only man/plot_predicted_strata.Rd | 59 man/plot_prediction_deviation_panels.Rd | 87 man/plot_risk_vs_effect.Rd | 51 man/plot_stratum_trajectories.Rd |only man/plot_vpc.Rd | 36 man/plot_vpc_trajectory.Rd |only man/predict_maihda.Rd | 123 man/print.maihda_analysis.Rd |only man/print.maihda_group_comparison.Rd |only man/print.maihda_ic.Rd |only man/print.maihda_interactions.Rd |only man/print.maihda_long_pcv.Rd |only man/print.maihda_model.Rd | 38 man/print.maihda_stepwise.Rd |only man/print.maihda_strata.Rd | 38 man/print.maihda_summary.Rd | 38 man/print.maihda_table.Rd |only man/print.pvc_result.Rd | 38 man/reexports.Rd |only man/run_maihda_app.Rd | 42 man/stepwise_pcv.Rd | 127 man/summary.maihda_analysis.Rd |only man/summary.maihda_model.Rd | 177 - tests/testthat.R | 24 tests/testthat/test-auto_detect_family.R | 42 tests/testthat/test-calculate_pvc.R | 114 tests/testthat/test-compare_maihda.R | 125 tests/testthat/test-compare_maihda_groups.R |only tests/testthat/test-contextual.R |only tests/testthat/test-correctness-regressions.R | 1312 +++++--- tests/testthat/test-country_data.R |only tests/testthat/test-cross-classified.R |only tests/testthat/test-design-weights.R |only tests/testthat/test-discriminatory-accuracy.R |only tests/testthat/test-fit_maihda.R | 189 + tests/testthat/test-health_data.R | 44 tests/testthat/test-information_criteria.R |only tests/testthat/test-interactions.R |only tests/testthat/test-longitudinal.R |only tests/testthat/test-maihda-ternary.R | 101 tests/testthat/test-maihda-workflow.R |only tests/testthat/test-maihda_table.R |only tests/testthat/test-make_strata.R | 62 tests/testthat/test-negbinomial.R |only tests/testthat/test-ordinal-engine.R |only tests/testthat/test-plot_predicted.R | 122 tests/testthat/test-plot_prediction_deviation_panels.R | 321 + tests/testthat/test-run_app.R | 785 ++++ tests/testthat/test-summary_variance.R | 298 + tests/testthat/test-tidiers.R |only tests/testthat/test-vpc-response.R |only vignettes/bayesian_sparse_maihda.Rmd |only vignettes/binary_outcomes.Rmd |only vignettes/cross_classified.Rmd |only vignettes/figures/ess_additivity.png |only vignettes/figures/ess_country.png |only vignettes/figures/ess_effect_decomp.png |only vignettes/figures/ess_neet_brms.png |only vignettes/figures/ess_partition.png |only vignettes/finding_interactions.Rmd |only vignettes/group_comparison.Rmd |only vignettes/interactive_app.Rmd | 10 vignettes/interpreting_plots.Rmd |only vignettes/introduction.Rmd | 338 +- vignettes/longitudinal.Rmd |only vignettes/planning_a_study.Rmd |only vignettes/reporting_results.Rmd |only vignettes/sparse_precomputed.rds |only 217 files changed, 14359 insertions(+), 4939 deletions(-)
Title: Automated Data Quality Checks for Recurring Dataset Deliveries
Description: Automates quality verification of recurring external dataset deliveries.
For each new file arrival, it runs single-snapshot quality checks, compares
the file to the previous delivery, writes a self-contained 'HTML' report, and
records summary statistics in a local 'SQLite' database for long-term trend
tracking. Supports 'CSV' and fixed-width formats. Custom organisation-specific
checks can be supplied as plain R files.
Author: Mick Mioduszewski [aut, cre]
Maintainer: Mick Mioduszewski <mick@mioduszewski.net>
Diff between dqcheckr versions 0.2.1 dated 2026-06-08 and 0.2.2 dated 2026-06-18
DESCRIPTION | 8 - MD5 | 27 ++-- NEWS.md | 22 +++ R/dqcheckr-package.R | 1 R/ingest.R | 9 + inst/doc/dqcheckr.Rmd | 19 ++ inst/doc/dqcheckr.html | 285 ++++++++++++++++++++++--------------------- inst/doc/specification.Rmd | 6 inst/doc/specification.html | 88 +++++++------ man/dqcheckr-package.Rd |only man/read_dataset.Rd | 8 - tests/testthat/test-ingest.R | 38 +++++ tests/testthat/test-utils.R | 3 vignettes/dqcheckr.Rmd | 19 ++ vignettes/specification.Rmd | 6 15 files changed, 342 insertions(+), 197 deletions(-)
Title: Multicountry Term Structure of Interest Rates Models
Description: Package for estimating, analyzing, and forecasting multi-country macro-finance affine term structure models (ATSMs). All setups build on the single-country unspanned macroeconomic risk framework from Joslin, Priebsch, and Singleton (2014, JF) <doi:10.1111/jofi.12131>. Multicountry extensions by Jotikasthira, Le, and Lundblad (2015, JFE) <doi:10.1016/j.jfineco.2014.09.004>, Candelon and Moura (2023, EM) <doi:10.1016/j.econmod.2023.106453>, and Candelon and Moura (2024, JFEC) <doi:10.1093/jjfinec/nbae008> are also available. The package also provides tools for bias correction as in Bauer Rudebusch and Wu (2012, JBES) <doi:10.1080/07350015.2012.693855>, bootstrap analysis, and several graphical/numerical outputs.
Author: Rubens Moura [aut, cre]
Maintainer: Rubens Moura <rubens.gtmoura@gmail.com>
Diff between MultiATSM versions 1.5.1-1 dated 2026-02-26 and 1.5.1-2 dated 2026-06-18
DESCRIPTION | 8 ++-- MD5 | 16 ++++---- R/NumOutputs.R | 24 ++++++++++--- inst/doc/MultiATSM.html | 4 +- inst/doc/Paper-Replications.html | 4 +- tests/testthat/Rplots.pdf |binary tests/testthat/test_Opt_NumOut_Boot_Graphs_Forecast_GVAR.R | 4 +- tests/testthat/test_Opt_NumOut_Boot_Graphs_Forecast_JLL.R | 4 +- tests/testthat/test_Opt_NumOut_Boot_Graphs_Forecast_JPS.R | 2 - 9 files changed, 40 insertions(+), 26 deletions(-)
Title: Gradient Projection Factor Rotation
Description: Gradient projection algorithms for orthogonal and oblique rotation
of factor loadings matrices in factor analysis. Implements a comprehensive
set of rotation criteria including quartimax, quartimin, oblimin, geomin,
simplimax, the Crawford-Ferguson family, and target rotation, among others.
Supports multiple random starts. For details see Bernaards and Jennrich (2005)
<doi:10.1177/0013164404272507>.
Author: Coen Bernaards [aut, cre],
Paul Gilbert [aut],
Robert Jennrich [aut]
Maintainer: Coen Bernaards <cab.gparotation@gmail.com>
Diff between GPArotation versions 2026.4-1 dated 2026-04-29 and 2026.6-1 dated 2026-06-18
GPArotation-2026.4-1/GPArotation/inst/doc/GPA1guide.Stex |only GPArotation-2026.4-1/GPArotation/inst/doc/GPA2local.Stex |only GPArotation-2026.4-1/GPArotation/inst/doc/GPA3bifactor.Stex |only GPArotation-2026.4-1/GPArotation/vignettes/GPA1guide.Stex |only GPArotation-2026.4-1/GPArotation/vignettes/GPA2local.Stex |only GPArotation-2026.4-1/GPArotation/vignettes/GPA3bifactor.Stex |only GPArotation-2026.6-1/GPArotation/DESCRIPTION | 9 GPArotation-2026.6-1/GPArotation/MD5 | 118 +- GPArotation-2026.6-1/GPArotation/NAMESPACE | 71 - GPArotation-2026.6-1/GPArotation/NEWS | 28 GPArotation-2026.6-1/GPArotation/R/GPF.R | 275 +++- GPArotation-2026.6-1/GPArotation/R/GPFRS.R | 102 + GPArotation-2026.6-1/GPArotation/R/NormalizingWeight.R | 46 GPArotation-2026.6-1/GPArotation/R/Residuals.R |only GPArotation-2026.6-1/GPArotation/R/echelon.R | 117 + GPArotation-2026.6-1/GPArotation/R/eiv.R | 87 + GPArotation-2026.6-1/GPArotation/R/fitStats.R |only GPArotation-2026.6-1/GPArotation/R/fitStatsFactor.R |only GPArotation-2026.6-1/GPArotation/R/lp.R | 4 GPArotation-2026.6-1/GPArotation/R/plots.R |only GPArotation-2026.6-1/GPArotation/R/printsummary.R | 263 +++- GPArotation-2026.6-1/GPArotation/R/rotations.R | 649 ++++++----- GPArotation-2026.6-1/GPArotation/R/trajectoryPlot.R |only GPArotation-2026.6-1/GPArotation/build/partial.rdb |only GPArotation-2026.6-1/GPArotation/build/vignette.rds |binary GPArotation-2026.6-1/GPArotation/data/GriffithMulaik.rda |only GPArotation-2026.6-1/GPArotation/data/Thurstone.rda |binary GPArotation-2026.6-1/GPArotation/inst/doc/GPA1guide.R | 288 +--- GPArotation-2026.6-1/GPArotation/inst/doc/GPA1guide.Rnw |only GPArotation-2026.6-1/GPArotation/inst/doc/GPA1guide.pdf |binary GPArotation-2026.6-1/GPArotation/inst/doc/GPA2local.R | 40 GPArotation-2026.6-1/GPArotation/inst/doc/GPA2local.Rnw |only GPArotation-2026.6-1/GPArotation/inst/doc/GPA2local.pdf |binary GPArotation-2026.6-1/GPArotation/inst/doc/GPA3bifactor.R | 40 GPArotation-2026.6-1/GPArotation/inst/doc/GPA3bifactor.Rnw |only GPArotation-2026.6-1/GPArotation/inst/doc/GPA3bifactor.pdf |binary GPArotation-2026.6-1/GPArotation/inst/doc/GPA4fitstats.R |only GPArotation-2026.6-1/GPArotation/inst/doc/GPA4fitstats.Rnw |only GPArotation-2026.6-1/GPArotation/inst/doc/GPA4fitstats.pdf |only GPArotation-2026.6-1/GPArotation/man/00.GPArotation.Rd | 140 +- GPArotation-2026.6-1/GPArotation/man/CCAI.Rd | 228 ++- GPArotation-2026.6-1/GPArotation/man/GPA.Rd | 233 +++ GPArotation-2026.6-1/GPArotation/man/GriffithMulaik.Rd |only GPArotation-2026.6-1/GPArotation/man/Harman.Rd | 3 GPArotation-2026.6-1/GPArotation/man/NormalizingWeight.Rd | 49 GPArotation-2026.6-1/GPArotation/man/Random.Start.Rd | 17 GPArotation-2026.6-1/GPArotation/man/Thurstone.Rd | 29 GPArotation-2026.6-1/GPArotation/man/WansbeekMeijer.Rd | 3 GPArotation-2026.6-1/GPArotation/man/echelon.Rd | 36 GPArotation-2026.6-1/GPArotation/man/eiv.Rd | 53 GPArotation-2026.6-1/GPArotation/man/lp.Rd | 2 GPArotation-2026.6-1/GPArotation/man/plot2fOrthComparison.Rd |only GPArotation-2026.6-1/GPArotation/man/plots.Rd |only GPArotation-2026.6-1/GPArotation/man/print.GPArotation.Rd | 56 GPArotation-2026.6-1/GPArotation/man/rotations.Rd | 161 +- GPArotation-2026.6-1/GPArotation/man/simple_structure.Rd |only GPArotation-2026.6-1/GPArotation/man/vgQ.Rd | 4 GPArotation-2026.6-1/GPArotation/tests/Jennrich2002.R | 17 GPArotation-2026.6-1/GPArotation/tests/MASSoblimin.R | 5 GPArotation-2026.6-1/GPArotation/tests/Thurstone.R | 31 GPArotation-2026.6-1/GPArotation/tests/WansbeekMeijer.R | 2 GPArotation-2026.6-1/GPArotation/tests/algorithmTests.R |only GPArotation-2026.6-1/GPArotation/tests/legacyVsBB.R |only GPArotation-2026.6-1/GPArotation/tests/legacyVsNew.R | 150 +- GPArotation-2026.6-1/GPArotation/tests/normalizationTests.R |only GPArotation-2026.6-1/GPArotation/tests/print-GPArotation.R | 4 GPArotation-2026.6-1/GPArotation/tests/rotations.R | 66 - GPArotation-2026.6-1/GPArotation/tests/rotationsRS.R | 10 GPArotation-2026.6-1/GPArotation/tests/rotbbcayley.R |only GPArotation-2026.6-1/GPArotation/tests/target_vs_bb_clash.R |only GPArotation-2026.6-1/GPArotation/tests/varimaxVarimax.R | 4 GPArotation-2026.6-1/GPArotation/tests/vgQtestOldVsNew.R | 16 GPArotation-2026.6-1/GPArotation/vignettes/GPA1guide.Rnw |only GPArotation-2026.6-1/GPArotation/vignettes/GPA2local.Rnw |only GPArotation-2026.6-1/GPArotation/vignettes/GPA3bifactor.Rnw |only GPArotation-2026.6-1/GPArotation/vignettes/GPA4fitstats.Rnw |only 76 files changed, 2154 insertions(+), 1302 deletions(-)
Title: A Simple Package for Testing R Packages
Description: A minimal, dependency-free testing framework for R packages.
Write tests as simple R expressions that return TRUE, using assert() for
assertions (with informative error messages on failure), has_error() /
has_warning() / has_message() for testing conditions, and test_pkg() to
run all tests with full access to internal (non-exported) package
functions. Snapshot testing via Markdown files is also supported.
Author: Yihui Xie [aut, cre] ,
Tomas Kalibera [ctb],
Steven Mortimer [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between testit versions 1.0 dated 2026-05-13 and 1.1 dated 2026-06-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/testit.R | 11 ++++++++--- man/test_pkg.Rd | 8 +++++--- tests/testit/test-testit.R | 27 +++++++++++++++++++++++++++ 5 files changed, 47 insertions(+), 13 deletions(-)
Title: Quick Wraps 2
Description: A collection of (wrapper) functions the creator found useful
for quickly placing data summaries and formatted regression results into
'.Rnw' or '.Rmd' files. Functions for generating commonly used graphics,
such as receiver operating curves or Bland-Altman plots, are also provided
by 'qwraps2'. 'qwraps2' is an updated version of a package 'qwraps'. The
original version 'qwraps' was never submitted to CRAN but can be found at
<https://github.com/dewittpe/qwraps/>. The implementation and limited scope
of the functions within 'qwraps2' <https://github.com/dewittpe/qwraps2/> is
fundamentally different from 'qwraps'.
Author: Peter DeWitt [aut, cre] ,
Tell Bennett [ctb]
Maintainer: Peter DeWitt <dewittpe@gmail.com>
Diff between qwraps2 versions 0.6.2 dated 2026-02-28 and 0.6.3 dated 2026-06-18
qwraps2-0.6.2/qwraps2/inst/templates |only qwraps2-0.6.2/qwraps2/man/deprecated.Rd |only qwraps2-0.6.2/qwraps2/src/logit.cpp |only qwraps2-0.6.3/qwraps2/DESCRIPTION | 13 qwraps2-0.6.3/qwraps2/MD5 | 137 ++-- qwraps2-0.6.3/qwraps2/NAMESPACE | 4 qwraps2-0.6.3/qwraps2/NEWS.md | 55 + qwraps2-0.6.3/qwraps2/R/RcppExports.R | 52 - qwraps2-0.6.3/qwraps2/R/confusion_matrix.R | 30 qwraps2-0.6.3/qwraps2/R/deprecated.R | 69 +- qwraps2-0.6.3/qwraps2/R/file-check.R | 6 qwraps2-0.6.3/qwraps2/R/frmt.R | 16 qwraps2-0.6.3/qwraps2/R/geometric_mean_sd.R | 7 qwraps2-0.6.3/qwraps2/R/lazyload_cache.R | 23 qwraps2-0.6.3/qwraps2/R/mean_se.R | 3 qwraps2-0.6.3/qwraps2/R/n_perc.R | 2 qwraps2-0.6.3/qwraps2/R/qable.R | 22 qwraps2-0.6.3/qwraps2/R/qkmplot.R | 58 + qwraps2-0.6.3/qwraps2/R/qroc.R | 2 qwraps2-0.6.3/qwraps2/R/qwraps2-package.R | 72 +- qwraps2-0.6.3/qwraps2/R/set_diff.R | 25 qwraps2-0.6.3/qwraps2/R/summary_table.R | 130 ++-- qwraps2-0.6.3/qwraps2/build/vignette.rds |binary qwraps2-0.6.3/qwraps2/data/mtcars2.rda |binary qwraps2-0.6.3/qwraps2/data/pefr.rda |binary qwraps2-0.6.3/qwraps2/data/spambase.rda |binary qwraps2-0.6.3/qwraps2/inst/WORDLIST | 107 +-- qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-data-sets.Rmd | 14 qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-data-sets.html | 48 - qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-formatted-summary-statistics.R | 12 qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-formatted-summary-statistics.Rmd | 38 - qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-formatted-summary-statistics.html | 78 +- qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-graphics.R | 38 - qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-graphics.Rmd | 67 +- qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-graphics.html | 308 ++++------ qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-summary-table.Rmd | 22 qwraps2-0.6.3/qwraps2/inst/doc/qwraps2-summary-table.html | 62 +- qwraps2-0.6.3/qwraps2/man/Rpkg.Rd | 3 qwraps2-0.6.3/qwraps2/man/StatStepribbon.Rd | 2 qwraps2-0.6.3/qwraps2/man/backtick.Rd | 2 qwraps2-0.6.3/qwraps2/man/confusion_matrix.Rd | 2 qwraps2-0.6.3/qwraps2/man/file_check.Rd | 2 qwraps2-0.6.3/qwraps2/man/frmt.Rd | 8 qwraps2-0.6.3/qwraps2/man/gmean.Rd | 6 qwraps2-0.6.3/qwraps2/man/lazyload_cache.Rd | 22 qwraps2-0.6.3/qwraps2/man/logit.Rd | 44 - qwraps2-0.6.3/qwraps2/man/n_perc.Rd | 2 qwraps2-0.6.3/qwraps2/man/qable.Rd | 8 qwraps2-0.6.3/qwraps2/man/qkmplot.Rd | 50 - qwraps2-0.6.3/qwraps2/man/qkmplot_bulid_data_frame.Rd |only qwraps2-0.6.3/qwraps2/man/qroc-qprc.Rd | 2 qwraps2-0.6.3/qwraps2/man/qroc_build_data_frame.Rd |only qwraps2-0.6.3/qwraps2/man/qwraps2-package.Rd | 76 +- qwraps2-0.6.3/qwraps2/man/set_diff.Rd | 19 qwraps2-0.6.3/qwraps2/man/summary_table.Rd | 127 ++-- qwraps2-0.6.3/qwraps2/src/RcppExports.cpp | 24 qwraps2-0.6.3/qwraps2/tests/test-confusion_matrix.R | 29 qwraps2-0.6.3/qwraps2/tests/test-file-check.R | 4 qwraps2-0.6.3/qwraps2/tests/test-logit.R | 8 qwraps2-0.6.3/qwraps2/tests/test-pkg_check.R | 3 qwraps2-0.6.3/qwraps2/tests/test-plots.R | 6 qwraps2-0.6.3/qwraps2/tests/test-qable.R | 12 qwraps2-0.6.3/qwraps2/tests/test-qkplot.R | 20 qwraps2-0.6.3/qwraps2/tests/test-set_diff.R | 15 qwraps2-0.6.3/qwraps2/tests/test-summary_table.R | 34 - qwraps2-0.6.3/qwraps2/vignettes/qwraps2-data-sets.Rmd | 14 qwraps2-0.6.3/qwraps2/vignettes/qwraps2-formatted-summary-statistics.Rmd | 38 - qwraps2-0.6.3/qwraps2/vignettes/qwraps2-graphics.Rmd | 67 +- qwraps2-0.6.3/qwraps2/vignettes/qwraps2-summary-table.Rmd | 22 69 files changed, 1198 insertions(+), 993 deletions(-)
Title: Miscellaneous Utilities and Functions
Description: Miscellaneous tools and functions,
including: generate descriptive statistics tables,
format output, visualize relations among variables or check
distributions, and generic functions for residual and
model diagnostics.
Author: Joshua F. Wiley [aut, cre]
Maintainer: Joshua F. Wiley <jwiley.psych@gmail.com>
Diff between JWileymisc versions 1.4.4 dated 2025-09-06 and 1.4.5 dated 2026-06-18
DESCRIPTION | 14 - MD5 | 35 ++- NAMESPACE | 1 NEWS.md | 6 R/geoms_themes.R | 5 R/models.R | 61 +++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/diagnostics-vignette.html | 26 +- inst/doc/exploratory-vignette.html | 278 +++++++++++++-------------- inst/doc/model-test-vignette.html | 7 man/geom_tufterange.Rd | 10 tests/testthat/test-SEMSummary.R | 5 tests/testthat/test-coverage-descriptives.R |only tests/testthat/test-coverage-diagnostics.R |only tests/testthat/test-coverage-models.R |only tests/testthat/test-coverage-plots.R |only tests/testthat/test-coverage-styler.R |only tests/testthat/test-coverage-utils.R |only tests/testthat/test-coverage-visual-acuity.R |only tests/testthat/test-descriptives-helpers.R | 2 tests/testthat/test-scoring.R | 8 22 files changed, 241 insertions(+), 217 deletions(-)
Title: Classes and Methods for Seismic Data Analysis
Description: Provides classes and methods for seismic data analysis. The
base classes and methods are inspired by the python code found in
the 'ObsPy' python toolbox <https://github.com/obspy/obspy>. Additional classes and
methods support data returned by web services provided by the EarthScope Consortium.
<https://service.earthscope.org/>.
Author: Jonathan Callahan [aut],
Rob Casey [aut],
Gillian Sharer [aut, cre],
Mary Templeton [aut],
Chad Trabant [ctb]
Maintainer: Gillian Sharer <gillian.sharer@earthscope.org>
Diff between IRISSeismic versions 1.8.0 dated 2026-03-19 and 1.9.0 dated 2026-06-18
IRISSeismic-1.8.0/IRISSeismic/src/libmseed2 |only IRISSeismic-1.9.0/IRISSeismic/DESCRIPTION | 6 IRISSeismic-1.9.0/IRISSeismic/MD5 | 161 ---------- IRISSeismic-1.9.0/IRISSeismic/R/Class-IrisClient.R | 29 + IRISSeismic-1.9.0/IRISSeismic/inst/doc/IRISSeismic-intro.R | 12 IRISSeismic-1.9.0/IRISSeismic/inst/doc/IRISSeismic-intro.Rmd | 46 -- IRISSeismic-1.9.0/IRISSeismic/inst/doc/IRISSeismic-intro.html | 59 --- IRISSeismic-1.9.0/IRISSeismic/man/IRISSeismic-deprecated.Rd |only IRISSeismic-1.9.0/IRISSeismic/man/IRISSeismic-package.Rd | 5 IRISSeismic-1.9.0/IRISSeismic/man/IrisClient-class.Rd | 4 IRISSeismic-1.9.0/IRISSeismic/man/getAvailability.Rd | 4 IRISSeismic-1.9.0/IRISSeismic/man/getTraveltime.Rd | 8 IRISSeismic-1.9.0/IRISSeismic/man/getUnavailability.Rd | 4 IRISSeismic-1.9.0/IRISSeismic/vignettes/IRISSeismic-intro.Rmd | 46 -- 14 files changed, 66 insertions(+), 318 deletions(-)
Title: Process Analysis for Exponential Random Graph Models
Description: Calculates marginal effects and conducts process analysis in exponential family random graph models (ERGM).
Includes functions to conduct mediation and moderation analyses and to diagnose
multicollinearity.
URL: <https://github.com/sduxbury/ergMargins>.
BugReports: <https://github.com/sduxbury/ergMargins/issues>.
Duxbury, Scott W (2021) <doi:10.1177/0049124120986178>.
Long, J. Scott, and Sarah Mustillo (2018) <doi:10.1177/0049124118799374>.
Mize, Trenton D. (2019) <doi:10.15195/v6.a4>.
Karlson, Kristian Bernt, Anders Holm, and Richard Breen (2012) <doi:10.1177/0081175012444861>.
Duxbury, Scott W (2018) <doi:10.1177/0049124118782543>.
Duxbury, Scott W, Jenna Wertsching (2023) <doi:10.1016/j.socnet.2023.02.003>.
Huang, Peng, Carter Butts (2023) <doi:10.1016/j.socnet.2023.07.001>.
Author: Scott Duxbury [aut, cre, cph]
Maintainer: Scott Duxbury <duxbury@email.unc.edu>
Diff between ergMargins versions 1.6.1 dated 2025-09-13 and 1.6.2 dated 2026-06-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/ergm.MSE.R | 2 +- man/ergm.msma.Rd | 2 +- man/ergmMSE.Rd | 2 +- 5 files changed, 10 insertions(+), 10 deletions(-)
Title: Summarise Patient-Level Drug Utilisation in Data Mapped to the
OMOP Common Data Model
Description: Summarise patient-level drug utilisation cohorts using data mapped
to the Observational Medical Outcomes Partnership (OMOP) common data model.
New users and prevalent users cohorts can be generated and their
characteristics, indication and drug use summarised.
Author: Marti Catala [aut, cre] ,
Mike Du [ctb] ,
Yuchen Guo [aut] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Xintong Li [ctb] ,
Marta Alcalde-Herraiz [ctb] ,
Nuria Mercade-Besora [aut] ,
Xihang Chen [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between DrugUtilisation versions 1.1.0 dated 2026-01-28 and 1.2.0 dated 2026-06-18
DESCRIPTION | 13 MD5 | 267 NAMESPACE | 155 NEWS.md | 253 R/DrugUtilisation-package.R | 20 R/addDrugUtilisation.R | 2318 - R/addIntersect.R | 836 R/benchmarkDrugUtilisation.R | 502 R/cohortUtilities.R | 476 R/dailyDose.R | 558 R/data.R | 46 R/documentationHelpers.R | 450 R/erafyCohort.R | 210 R/generateAtcCohortSet.R | 158 R/generateDrugUtilisationCohortSet.R | 366 R/generateIngredientCohortSet.R | 344 R/mockDrugUtilisation.R | 1200 R/pattern.R | 348 R/plots.R | 1310 - R/reexports.R | 102 R/require.R | 706 R/summariseDiscontinuationAsSurvival.R |only R/summariseDrugRestart.R | 914 R/summariseDrugUtilisation.R | 458 R/summariseIntersect.R | 877 R/summariseProportionOfPatientsCovered.R | 648 R/tables.R | 956 R/validate.R | 152 README.md | 408 build/vignette.rds |binary inst/CITATION | 22 inst/Concept/asthma.json | 36 inst/acetaminophen.json | 24 inst/concepts/acetaminophen.json | 24 inst/concepts/influenza.json | 24 inst/doc/create_cohorts.R | 1082 inst/doc/create_cohorts.Rmd | 1690 - inst/doc/create_cohorts.html | 2396 - inst/doc/drug_utilisation.R | 336 inst/doc/drug_utilisation.Rmd | 602 inst/doc/drug_utilisation.html |16186 ++++++------- inst/pattern_assessment_for_dose_final.csv | 84 man/DrugUtilisation-package.Rd | 82 man/addCumulativeDose.Rd | 132 man/addCumulativeQuantity.Rd | 124 man/addDailyDose.Rd | 50 man/addDaysExposed.Rd | 132 man/addDaysPrescribed.Rd | 124 man/addDrugRestart.Rd | 118 man/addDrugUtilisation.Rd | 220 man/addIndication.Rd | 170 man/addInitialDailyDose.Rd | 132 man/addInitialExposureDuration.Rd | 124 man/addInitialQuantity.Rd | 124 man/addNumberEras.Rd | 132 man/addNumberExposures.Rd | 124 man/addTimeToExposure.Rd | 124 man/addTreatment.Rd | 144 man/benchmarkDrugUtilisation.Rd | 86 man/cdmDoc.Rd | 24 man/censorDateDoc.Rd | 26 man/cohortDoc.Rd | 24 man/cohortGapEra.Rd | 78 man/cohortIdDoc.Rd | 26 man/compNameDoc.Rd | 26 man/conceptSetDoc.Rd | 24 man/daysPrescribedDoc.Rd | 26 man/drugUtilisationDoc.Rd | 92 man/erafyCohort.Rd | 102 man/gapEraDoc.Rd | 26 man/generateAtcCohortSet.Rd | 138 man/generateDrugUtilisationCohortSet.Rd | 146 man/generateIngredientCohortSet.Rd | 154 man/indexDateDoc.Rd | 26 man/ingredientConceptIdDoc.Rd | 26 man/mockDrugUtilisation.Rd | 90 man/nameStyleDoc.Rd | 24 man/newNameDoc.Rd | 26 man/numberExposuresDoc.Rd | 26 man/patternTable.Rd | 56 man/patternsWithFormula.Rd | 38 man/plotDiscontinuationAsSurvival.Rd |only man/plotDoc.Rd | 58 man/plotDrugRestart.Rd | 130 man/plotDrugUtilisation.Rd | 182 man/plotIndication.Rd | 148 man/plotProportionOfPatientsCovered.Rd | 114 man/plotTreatment.Rd | 124 man/reexports.Rd | 56 man/requireDrugInDateRange.Rd | 102 man/requireIsFirstDrugEntry.Rd | 84 man/requireObservationBeforeDrug.Rd | 98 man/requirePriorDrugWashout.Rd | 104 man/restrictIncidentDoc.Rd | 28 man/resultDoc.Rd | 24 man/strataDoc.Rd | 26 man/summariseDiscontinuationAsSurvival.Rd |only man/summariseDoseCoverage.Rd | 90 man/summariseDrugRestart.Rd | 140 man/summariseDrugUtilisation.Rd | 228 man/summariseIndication.Rd | 178 man/summariseProportionOfPatientsCovered.Rd | 96 man/summariseTreatment.Rd | 130 man/tableDiscontinuationAsSurvival.Rd |only man/tableDoc.Rd | 90 man/tableDoseCoverage.Rd | 144 man/tableDrugRestart.Rd | 158 man/tableDrugUtilisation.Rd | 158 man/tableIndication.Rd | 156 man/tableProportionOfPatientsCovered.Rd | 154 man/tableTreatment.Rd | 154 tests/testthat.R | 24 tests/testthat/_snaps/addDrugUtilisation.md | 144 tests/testthat/setup.R | 140 tests/testthat/test-addDrugUtilisation.R | 942 tests/testthat/test-benchmarkDrugUtilisation.R | 56 tests/testthat/test-dailyDose.R | 564 tests/testthat/test-erafyCohort.R | 152 tests/testthat/test-generateDrugUtilisationCohortSet.R | 510 tests/testthat/test-generatedAtcCohortSet.R | 66 tests/testthat/test-indication.R | 1334 - tests/testthat/test-patterns.R | 130 tests/testthat/test-plotProportionOfPatientsCovered.R | 298 tests/testthat/test-plotTreatment.R | 178 tests/testthat/test-plots.R | 518 tests/testthat/test-require.R | 1270 - tests/testthat/test-summariseDiscontinuation.R |only tests/testthat/test-summariseDrugRestart.R | 624 tests/testthat/test-summariseDrugUtilisation.R | 296 tests/testthat/test-summariseProportionOfPatientsCovered.R | 1192 tests/testthat/test-summariseTreatment.R | 304 tests/testthat/test-tables.R | 946 vignettes/create_cohorts.Rmd | 1690 - vignettes/daily_dose_calculation.html |only vignettes/drug_restart.html |only vignettes/drug_utilisation.Rmd | 602 vignettes/indication.html |only vignettes/mock_data.html |only vignettes/summarise_treatments.html |only vignettes/treatment_discontinuation.html |only 140 files changed, 28298 insertions(+), 27759 deletions(-)
More information about DrugUtilisation at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-11-13 0.1.5
2020-09-23 0.1.2
2020-07-01 0.1.1
2020-04-24 0.1.0
Title: An 'Shiny' App for Exploring scRNA-seq Data Processed in
'Seurat'
Description: A simple, one-command package which runs an interactive dashboard capable of common visualizations for single cell RNA-seq. 'SeuratExplorer' requires a processed 'Seurat' object, which is saved as 'rds' or 'qs2' file.
Author: Yongchao Zhang [aut, cre]
Maintainer: Yongchao Zhang <zhangyongchao@nibs.ac.cn>
Diff between SeuratExplorer versions 0.1.4 dated 2026-03-30 and 0.1.6 dated 2026-06-17
SeuratExplorer-0.1.4/SeuratExplorer/inst |only SeuratExplorer-0.1.6/SeuratExplorer/DESCRIPTION | 14 SeuratExplorer-0.1.6/SeuratExplorer/MD5 | 70 SeuratExplorer-0.1.6/SeuratExplorer/NAMESPACE | 82 SeuratExplorer-0.1.6/SeuratExplorer/R/functions.R | 59 SeuratExplorer-0.1.6/SeuratExplorer/R/launch.R | 7 SeuratExplorer-0.1.6/SeuratExplorer/R/server.R | 863 +++-- SeuratExplorer-0.1.6/SeuratExplorer/R/ui.R | 1596 +++++++--- SeuratExplorer-0.1.6/SeuratExplorer/man/cellRatioPlot.Rd | 110 SeuratExplorer-0.1.6/SeuratExplorer/man/explorer_body_ui.Rd | 44 SeuratExplorer-0.1.6/SeuratExplorer/man/explorer_server.Rd | 50 SeuratExplorer-0.1.6/SeuratExplorer/man/explorer_sidebar_ui.Rd | 38 SeuratExplorer-0.1.6/SeuratExplorer/man/getColors.Rd | 48 SeuratExplorer-0.1.6/SeuratExplorer/man/get_counts_matrix.Rd | 38 SeuratExplorer-0.1.6/SeuratExplorer/man/get_data_matrix.Rd | 38 SeuratExplorer-0.1.6/SeuratExplorer/man/join_layers_if_needed.Rd | 38 SeuratExplorer-0.1.6/SeuratExplorer/man/launchSeuratExplorer.Rd | 62 SeuratExplorer-0.1.6/SeuratExplorer/man/prepare_gene_annotations.Rd | 44 SeuratExplorer-0.1.6/SeuratExplorer/man/server.Rd | 42 SeuratExplorer-0.1.6/SeuratExplorer/man/top_genes.Rd | 52 SeuratExplorer-0.1.6/SeuratExplorer/man/ui.Rd | 36 21 files changed, 2284 insertions(+), 1047 deletions(-)
More information about SeuratExplorer at CRAN
Permanent link
Title: Power Analyses using Monte Carlo Simulations
Description: Provides a general purpose simulation-based power analysis
API for routine and customized simulation experimental designs.
The package focuses exclusively on Monte Carlo simulation experiment variants of
(expected) prospective power analyses,
criterion analyses, compromise analyses, sensitivity analyses, and
a priori/post-hoc analyses. The default simulation experiment functions defined within the package
provide stochastic variants of the power analysis subroutines in
G*Power 3.1 (Faul, Erdfelder, Buchner, and Lang, 2009) <doi:10.3758/brm.41.4.1149>,
along with various other parametric and non-parametric power analysis
applications (e.g., mediation analyses) and support for Bayesian power analysis
by way of Bayes factors or posterior probability evaluations.
Additional functions for building
empirical power curves, reanalyzing simulation information, and
for increasing the precision of the resulting power
estimates are also included, each of which utilize similar API structures. [...truncated...]
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between Spower versions 0.6.3 dated 2026-05-21 and 0.6.4 dated 2026-06-17
DESCRIPTION | 8 - MD5 | 42 +++---- NAMESPACE | 1 R/Spower.R | 9 + inst/doc/SpowerIntro.R | 10 + inst/doc/SpowerIntro.Rmd | 14 ++ inst/doc/SpowerIntro.html | 36 +++--- inst/doc/SpowerIntro_logicals.html | 76 ++++++------- inst/doc/Spower_TypeSM.R | 3 inst/doc/Spower_TypeSM.Rmd | 23 ++-- inst/doc/Spower_TypeSM.html | 39 +++--- inst/doc/gpower_examples.R | 8 - inst/doc/gpower_examples.Rmd | 26 ++-- inst/doc/gpower_examples.html | 209 +++++++++++++++++++------------------ inst/gpower.rds |binary inst/intro.rds |binary inst/intro2.rds |binary inst/intro3.rds |binary tests/testthat/test-Spower.R | 42 +++++++ vignettes/SpowerIntro.Rmd | 14 ++ vignettes/Spower_TypeSM.Rmd | 23 ++-- vignettes/gpower_examples.Rmd | 26 ++-- 22 files changed, 361 insertions(+), 248 deletions(-)
Title: Automated Construction of R Data Packages from REDCap Projects
Description: Export all data, including metadata, from a REDCap (Research
Electronic Data Capture) Project via the REDCap API
<https://projectredcap.org/wp-content/resources/REDCapTechnicalOverview.pdf>.
The exported (meta)data will be processed and formatted into a stand-alone R
data package which can be installed and shared between researchers. Several
default reports are generated as vignettes in the resulting package.
Author: Peter DeWitt [aut, cre]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between REDCapExporter versions 0.3.4 dated 2026-03-09 and 0.3.5 dated 2026-06-17
DESCRIPTION | 17 ++--- MD5 | 68 ++++++++++---------- NEWS.md | 29 +++++++- R/REDCapExporter-package.R | 3 R/build_r_data_package.R | 14 ++-- R/datasets.R | 8 +- R/keyring.R | 2 R/write.R | 11 +-- build/vignette.rds |binary data/avs_raw_core.rda |binary data/avs_raw_core_json.rda |binary data/avs_raw_metadata.rda |binary data/avs_raw_metadata_json.rda |binary data/avs_raw_project.rda |binary data/avs_raw_project_json.rda |binary data/avs_raw_record.rda |binary data/avs_raw_record_json.rda |binary data/avs_raw_user.rda |binary data/avs_raw_user_json.rda |binary inst/doc/api.Rmd | 34 +++++----- inst/doc/api.html | 73 ++++++++++----------- inst/doc/formatting.Rmd | 12 +-- inst/doc/formatting.html | 18 ++--- inst/doc/redcap2package.R | 9 ++ inst/doc/redcap2package.Rmd | 26 ++++--- inst/doc/redcap2package.html | 139 ++++++++++++++++++----------------------- man/REDCapExporter-package.Rd | 8 ++ man/REDCapExporter_keyring.Rd | 2 man/build_r_data_package.Rd | 8 +- man/example_data.Rd | 8 +- man/write_description_file.Rd | 8 +- tests/test-build_r_pkg.R | 10 +- vignettes/api.Rmd | 34 +++++----- vignettes/formatting.Rmd | 12 +-- vignettes/redcap2package.Rmd | 26 ++++--- 35 files changed, 307 insertions(+), 272 deletions(-)
More information about REDCapExporter at CRAN
Permanent link
Title: R Interface to the 'Uno' Nonlinear Optimization Solver
Description: Bindings to 'Uno' (Unifying Nonlinear Optimization), a C++ solver
for smooth nonlinearly constrained optimization. 'Uno' unifies Lagrange-Newton
methods, including sequential quadratic programming and interior-point
methods, by decomposing them into interacting building blocks
(constraint-relaxation, inequality-handling, Hessian, and globalization
strategies) that can be freely combined, either through options or through
presets that reproduce established solvers such as 'filterSQP' and 'IPOPT'.
The framework is described in Vanaret and Leyffer (2024)
<doi:10.48550/arXiv.2406.13454>.
Author: Balasubramanian Narasimhan [aut, cre],
Charlie Vanaret [aut, cph] ,
Sven Leyffer [aut, cph] ,
HiGHS development team [cph] ; see
inst/COPYRIGHTS)
Maintainer: Balasubramanian Narasimhan <naras@stanford.edu>
Diff between Uno versions 2.7.3-1 dated 2026-06-11 and 2.7.4 dated 2026-06-17
DESCRIPTION | 8 MD5 | 115 +++++----- NEWS.md | 22 + configure | 2 configure.win | 35 ++- inst/build_uno.sh | 10 inst/doc/Uno.html | 2 inst/tinytest/test_uno_solve.R | 36 ++- inst/uno/CMakeLists.txt | 8 inst/uno/README.md | 2 inst/uno/docs/developers/checklists.md | 5 inst/uno/docs/figures/logo.png |binary inst/uno/docs/options.md | 1 inst/uno/interfaces/AMPL/AMPLModel.cpp | 65 ++--- inst/uno/interfaces/AMPL/AMPLModel.hpp | 22 - inst/uno/interfaces/AMPL/README.md | 2 inst/uno/interfaces/AMPL/uno_ampl.cpp | 72 +++--- inst/uno/interfaces/C/README.md | 4 inst/uno/interfaces/C/Uno_C_API.cpp | 12 - inst/uno/interfaces/C/Uno_C_API.h | 5 inst/uno/interfaces/C/example/example_hs015.c | 5 inst/uno/interfaces/Fortran/README.md | 8 inst/uno/interfaces/Fortran/example_uno.f90 | 5 inst/uno/interfaces/Fortran/uno_c.f90 | 14 + inst/uno/interfaces/Fortran/uno_fortran.f90 | 77 +++--- inst/uno/pyproject.toml | 2 inst/uno/uno/Uno.cpp | 4 inst/uno/uno/ingredients/con_relax/relaxed_problems/ElasticVariables.cpp | 5 inst/uno/uno/ingredients/con_relax/relaxed_problems/l1RelaxedProblem.hpp | 6 inst/uno/uno/ingredients/hessian_models/qn/inverse/InverseLBFGSHessian.cpp | 17 - inst/uno/uno/ingredients/ineq/ipm/barrier_problems/PrimalDualInteriorPointProblem.hpp | 6 inst/uno/uno/ingredients/subproblem/Subproblem.hpp | 4 inst/uno/uno/ingredients/subproblem_solvers/BQPD/BQPDSolver.cpp | 7 inst/uno/uno/ingredients/subproblem_solvers/HiGHS/HiGHSSolver.hpp | 2 inst/uno/uno/ingredients/subproblem_solvers/MUMPS/MUMPSSolver.hpp | 2 inst/uno/uno/ingredients/subproblem_solvers/SSIDS/SSIDSSolver.hpp | 2 inst/uno/uno/linear_algebra/Vector.hpp | 44 +++ inst/uno/uno/linear_algebra/VectorView.hpp | 4 inst/uno/uno/model/FixedBoundsConstraintsModel.cpp | 4 inst/uno/uno/model/FixedBoundsConstraintsModel.hpp | 6 inst/uno/uno/model/HomogeneousEqualityConstrainedModel.cpp | 4 inst/uno/uno/model/HomogeneousEqualityConstrainedModel.hpp | 5 inst/uno/uno/optimization/OptimizationProblem.hpp | 5 inst/uno/uno/optimization/Result.hpp | 1 inst/uno/uno/options/Options.cpp | 3 inst/uno/uno/symbolic/IntegerRange.hpp |only inst/uno/uno/symbolic/Inverse.hpp | 4 inst/uno/uno/symbolic/Multiplication.hpp | 8 inst/uno/uno/symbolic/Range.hpp | 107 +++++---- inst/uno/uno/symbolic/ScalarMultiple.hpp | 10 inst/uno/uno/symbolic/Subtraction.hpp | 9 inst/uno/uno/symbolic/Sum.hpp | 8 inst/uno/uno/symbolic/Transpose.hpp | 4 inst/uno/uno/symbolic/Triangular.hpp | 16 - inst/uno/uno/symbolic/symbolic_traits.hpp | 17 + inst/uno/uno_default.opt | 2 inst/uno/unotest/unit_tests/ConcatenationTests.cpp | 8 src/dmumps_shim.c | 26 +- src/uno_binding.cpp | 8 59 files changed, 526 insertions(+), 371 deletions(-)
Title: "Node+Edge Betweenness Community Detection Algorithm for
'igraph' Objects"
Description: Implements the "Node + Edge Betweenness" community detection
algorithm for network analysis using 'igraph' objects. This algorithm
combines node degree and betweenness centrality measures to identify
communities within networks, with a gradient evident in social
partitioning. The package provides functions for implementation of the
algorithm, visualization, and analysis of the resulting community
structure along with the original dataset used in the publication.
Methods are based on results from Smith, Pittman and Xu (2026)
<doi:10.1002/cjs.70060>.
Author: Benjamin Smith [aut, cre] ,
Tyler Pittman [aut] ,
Wei Xu [aut]
Maintainer: Benjamin Smith <benyamin.smith@mail.utoronto.ca>
Diff between ig.degree.betweenness versions 0.2.0 dated 2025-06-24 and 0.2.1 dated 2026-06-17
DESCRIPTION | 67 ++++------ MD5 | 39 +++--- NAMESPACE | 50 ++++--- R/cluster_degree_betweenness.R | 10 - R/degree_balance.R |only R/ig.degree.betweenness-package.R |only R/lcd_graphs.R |only R/oncology_network.R | 36 ++--- R/plot_node_degrees.R | 222 +++++++++++++++++------------------ R/plot_simplified_edgeplot.R | 5 R/prep_unlabeled_graph.R | 4 R/zzz.R | 2 build |only inst/CITATION | 47 +++++-- man/cluster_degree_betweenness.Rd | 105 ++++++++-------- man/degree_balance.Rd |only man/figures |only man/ig.degree.betweenness-package.Rd |only man/lcd_graphs.Rd |only man/oncology_network.Rd | 8 - man/plot_node_degrees.Rd | 18 +- man/plot_simplified_edgeplot.Rd | 3 man/prep_unlabeled_graph.Rd | 3 23 files changed, 324 insertions(+), 295 deletions(-)
More information about ig.degree.betweenness at CRAN
Permanent link
Title: General Linear Blend Frequency Polygon Density Estimation
Description: Implements nonparametric density estimation with Averaged Shifted
Histogram (ASH), Linear Blend Frequency Polygon (LBFP), and General Linear
Blend Frequency Polygon (GLBFP) estimators. The package provides pointwise
and grid-based estimation workflows, sparse-prefix grid-count computation,
plotting helpers, and plug-in bandwidth selection. Methodological
background follows Scott (1992) <doi:10.1002/9780470316849>, Terrell and
Scott (1985) <doi:10.1080/01621459.1985.10477163>, and Carbon and
Duchesne (2024) <doi:10.1007/s10463-023-00883-5>.
Author: Aurelien Nicosia [aut, cre],
Thierry Duchesne [aut],
Michel Carbon [aut]
Maintainer: Aurelien Nicosia <aurelien.nicosia@mat.ulaval.ca>
Diff between GLBFP versions 0.5.1 dated 2026-06-16 and 0.5.2 dated 2026-06-17
DESCRIPTION | 26 MD5 | 16 NEWS.md | 4 inst/CITATION | 6 inst/doc/GLBFP_validation.html | 48 inst/doc/two-dimensional-density.R | 6 inst/doc/two-dimensional-density.Rmd | 8 inst/doc/two-dimensional-density.html | 1892 ---------------------------------- vignettes/two-dimensional-density.Rmd | 8 9 files changed, 72 insertions(+), 1942 deletions(-)
Title: Ebrahim-Farrington Goodness-of-Fit Test for Logistic Regression
Description: Implements the Ebrahim-Farrington goodness-of-fit test for logistic
regression models, particularly effective for sparse data and binary outcomes.
This test provides an improved alternative to the traditional Hosmer-Lemeshow
test by using a modified Pearson chi-square statistic with data-dependent
grouping. The test is based on Farrington (1996) theoretical framework but
simplified for practical implementation with binary data. Includes functions
for both the original Farrington test (for grouped data) and the new
Ebrahim-Farrington test (for binary data with automatic grouping), the
Directed Ebrahim-Farrington (DEF) test that targets calibration-shape
departures, and an ensemble that combines the DEF bases via the Cauchy
combination test. Also provides 'run.all.gof()', which runs a battery of
classical and modern goodness-of-fit and calibration tests (including
McCullagh, Osius-Rojek, le Cessie-van Houwelingen, Stute-Zhu, and the GiViTI
calibration test) in one call. For more details [...truncated...]
Author: Ebrahim Khaled Ebrahim [aut, cre]
Maintainer: Ebrahim Khaled Ebrahim <ebrahimkhaled@alexu.edu.eg>
Diff between ebrahim.gof versions 2.0.0 dated 2026-06-12 and 2.1.0 dated 2026-06-17
DESCRIPTION | 15 - MD5 | 28 +- NAMESPACE | 17 + NEWS.md | 56 +++++ R/cdef_gof.R |only R/run_all_gof.R | 319 ++++++++++++++++++++++++++++----- inst/WORDLIST | 131 ++++++------- inst/doc/ebrahim-farrington-intro.R | 2 inst/doc/ebrahim-farrington-intro.Rmd | 5 inst/doc/ebrahim-farrington-intro.html | 98 +++++----- man/cdef.gof.Rd |only man/deploy.gof.Rd |only man/gof.features.Rd |only man/plot.gof_battery.Rd |only man/print.gof_battery.Rd |only man/run.all.gof.Rd | 63 ++++-- tests/testthat/test-run-all-gof.R | 25 +- vignettes/ebrahim-farrington-intro.Rmd | 5 18 files changed, 557 insertions(+), 207 deletions(-)
Title: A 'dplyr' Back End for Databases
Description: A 'dplyr' back end for databases that allows you to work with
remote database tables as if they are in-memory data frames. Basic
features work with any database that has a 'DBI' back end; more
advanced features require 'SQL' translation to be provided by the
package author.
Author: Hadley Wickham [aut, cre],
Maximilian Girlich [aut],
Edgar Ruiz [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dbplyr versions 2.5.2 dated 2026-02-13 and 2.6.0 dated 2026-06-17
dbplyr-2.5.2/dbplyr/R/build-sql.R |only dbplyr-2.5.2/dbplyr/R/db-escape.R |only dbplyr-2.5.2/dbplyr/R/explain.R |only dbplyr-2.5.2/dbplyr/R/lazy-join-query.R |only dbplyr-2.5.2/dbplyr/R/lazy-query.R |only dbplyr-2.5.2/dbplyr/R/lazy-select-query.R |only dbplyr-2.5.2/dbplyr/R/lazy-set-op-query.R |only dbplyr-2.5.2/dbplyr/R/pillar.R |only dbplyr-2.5.2/dbplyr/R/reexport.R |only dbplyr-2.5.2/dbplyr/R/simulate.R |only dbplyr-2.5.2/dbplyr/R/sql-expr.R |only dbplyr-2.5.2/dbplyr/R/test-frame.R |only dbplyr-2.5.2/dbplyr/R/testthat.R |only dbplyr-2.5.2/dbplyr/R/translate-sql-paste.R |only dbplyr-2.5.2/dbplyr/R/translate-sql-quantile.R |only dbplyr-2.5.2/dbplyr/inst/doc/backend-2.R |only dbplyr-2.5.2/dbplyr/inst/doc/backend-2.Rmd |only dbplyr-2.5.2/dbplyr/inst/doc/backend-2.html |only dbplyr-2.5.2/dbplyr/inst/doc/sql.R |only dbplyr-2.5.2/dbplyr/inst/doc/sql.Rmd |only dbplyr-2.5.2/dbplyr/inst/doc/sql.html |only dbplyr-2.5.2/dbplyr/man/db-quote.Rd |only dbplyr-2.5.2/dbplyr/man/memdb_frame.Rd |only dbplyr-2.5.2/dbplyr/man/reexports.Rd |only dbplyr-2.5.2/dbplyr/man/simulate_dbi.Rd |only dbplyr-2.5.2/dbplyr/man/testing.Rd |only dbplyr-2.5.2/dbplyr/man/win_over.Rd |only dbplyr-2.5.2/dbplyr/tests/testthat/_snaps/build-sql.md |only dbplyr-2.5.2/dbplyr/tests/testthat/_snaps/lazy-join-query.md |only dbplyr-2.5.2/dbplyr/tests/testthat/_snaps/lazy-select-query.md |only dbplyr-2.5.2/dbplyr/tests/testthat/_snaps/pillar.md |only dbplyr-2.5.2/dbplyr/tests/testthat/_snaps/tidyeval.md |only dbplyr-2.5.2/dbplyr/tests/testthat/_snaps/translate-sql-quantile.md |only dbplyr-2.5.2/dbplyr/tests/testthat/test-build-sql.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-db-escape.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-lazy-join-query.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-lazy-select-query.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-pillar.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-sql-expr.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-translate-sql-paste.R |only dbplyr-2.5.2/dbplyr/tests/testthat/test-translate-sql-quantile.R |only dbplyr-2.5.2/dbplyr/vignettes/backend-2.Rmd |only dbplyr-2.5.2/dbplyr/vignettes/sql.Rmd |only dbplyr-2.6.0/dbplyr/DESCRIPTION | 71 dbplyr-2.6.0/dbplyr/MD5 | 717 +++---- dbplyr-2.6.0/dbplyr/NAMESPACE | 439 ++-- dbplyr-2.6.0/dbplyr/NEWS.md | 129 + dbplyr-2.6.0/dbplyr/R/backend-.R | 476 +++- dbplyr-2.6.0/dbplyr/R/backend-access.R | 247 +- dbplyr-2.6.0/dbplyr/R/backend-adbc.R |only dbplyr-2.6.0/dbplyr/R/backend-db2.R |only dbplyr-2.6.0/dbplyr/R/backend-hana.R | 49 dbplyr-2.6.0/dbplyr/R/backend-hive.R | 89 dbplyr-2.6.0/dbplyr/R/backend-impala.R | 64 dbplyr-2.6.0/dbplyr/R/backend-jdbc.R |only dbplyr-2.6.0/dbplyr/R/backend-mssql.R | 914 ++++++--- dbplyr-2.6.0/dbplyr/R/backend-mysql.R | 275 +- dbplyr-2.6.0/dbplyr/R/backend-odbc.R | 57 dbplyr-2.6.0/dbplyr/R/backend-oracle.R | 358 ++- dbplyr-2.6.0/dbplyr/R/backend-postgres-old.R | 62 dbplyr-2.6.0/dbplyr/R/backend-postgres.R | 430 ++-- dbplyr-2.6.0/dbplyr/R/backend-redshift.R | 145 - dbplyr-2.6.0/dbplyr/R/backend-snowflake.R | 273 +- dbplyr-2.6.0/dbplyr/R/backend-spark-sql.R | 231 +- dbplyr-2.6.0/dbplyr/R/backend-sqlite.R | 165 + dbplyr-2.6.0/dbplyr/R/backend-teradata.R | 338 +-- dbplyr-2.6.0/dbplyr/R/backward-compatibility.R |only dbplyr-2.6.0/dbplyr/R/bind-queries.R |only dbplyr-2.6.0/dbplyr/R/data-cache.R | 18 dbplyr-2.6.0/dbplyr/R/data-lahman.R | 11 dbplyr-2.6.0/dbplyr/R/data-nycflights13.R | 33 dbplyr-2.6.0/dbplyr/R/db-io.R | 206 +- dbplyr-2.6.0/dbplyr/R/db-sql.R | 957 +++------- dbplyr-2.6.0/dbplyr/R/db.R | 126 - dbplyr-2.6.0/dbplyr/R/dbplyr.R | 2 dbplyr-2.6.0/dbplyr/R/escape.R | 244 +- dbplyr-2.6.0/dbplyr/R/ident.R | 42 dbplyr-2.6.0/dbplyr/R/import-standalone-obj-type.R | 2 dbplyr-2.6.0/dbplyr/R/join-by-compat.R | 75 dbplyr-2.6.0/dbplyr/R/join-cols-compat.R | 55 dbplyr-2.6.0/dbplyr/R/lazy-ops.R | 112 - dbplyr-2.6.0/dbplyr/R/memdb.R | 92 dbplyr-2.6.0/dbplyr/R/optimise-utils.R | 20 dbplyr-2.6.0/dbplyr/R/progress.R | 40 dbplyr-2.6.0/dbplyr/R/query-base.R |only dbplyr-2.6.0/dbplyr/R/query-join.R | 506 +++-- dbplyr-2.6.0/dbplyr/R/query-rf-join.R |only dbplyr-2.6.0/dbplyr/R/query-select.R | 428 +++- dbplyr-2.6.0/dbplyr/R/query-semi-join.R | 220 +- dbplyr-2.6.0/dbplyr/R/query-set-op.R | 174 - dbplyr-2.6.0/dbplyr/R/query-union.R |only dbplyr-2.6.0/dbplyr/R/query.R | 51 dbplyr-2.6.0/dbplyr/R/remote.R | 87 dbplyr-2.6.0/dbplyr/R/rows.R | 243 +- dbplyr-2.6.0/dbplyr/R/schema.R | 54 dbplyr-2.6.0/dbplyr/R/sql-build.R | 93 dbplyr-2.6.0/dbplyr/R/sql-clause.R | 139 - dbplyr-2.6.0/dbplyr/R/sql-dialect.R |only dbplyr-2.6.0/dbplyr/R/sql-glue.R |only dbplyr-2.6.0/dbplyr/R/sql-quote.R |only dbplyr-2.6.0/dbplyr/R/sql-superseded.R |only dbplyr-2.6.0/dbplyr/R/sql.R | 56 dbplyr-2.6.0/dbplyr/R/src-sql.R | 43 dbplyr-2.6.0/dbplyr/R/src_dbi.R | 121 - dbplyr-2.6.0/dbplyr/R/table-name.R | 73 dbplyr-2.6.0/dbplyr/R/tbl-lazy.R | 20 dbplyr-2.6.0/dbplyr/R/tbl-sql.R | 137 - dbplyr-2.6.0/dbplyr/R/tidyeval-across.R | 236 +- dbplyr-2.6.0/dbplyr/R/tidyeval.R | 181 + dbplyr-2.6.0/dbplyr/R/translate-sql-aggregate.R |only dbplyr-2.6.0/dbplyr/R/translate-sql-conditional.R | 87 dbplyr-2.6.0/dbplyr/R/translate-sql-cut.R | 32 dbplyr-2.6.0/dbplyr/R/translate-sql-helpers.R | 359 --- dbplyr-2.6.0/dbplyr/R/translate-sql-scalar.R |only dbplyr-2.6.0/dbplyr/R/translate-sql-string.R | 192 +- dbplyr-2.6.0/dbplyr/R/translate-sql-window.R | 251 +- dbplyr-2.6.0/dbplyr/R/translate-sql.R | 157 - dbplyr-2.6.0/dbplyr/R/utils-check.R | 123 - dbplyr-2.6.0/dbplyr/R/utils.R | 56 dbplyr-2.6.0/dbplyr/R/verb-arrange.R | 108 - dbplyr-2.6.0/dbplyr/R/verb-collapse.R |only dbplyr-2.6.0/dbplyr/R/verb-collect.R |only dbplyr-2.6.0/dbplyr/R/verb-compute.R | 122 - dbplyr-2.6.0/dbplyr/R/verb-copy-inline.R |only dbplyr-2.6.0/dbplyr/R/verb-copy-to.R | 424 ---- dbplyr-2.6.0/dbplyr/R/verb-count.R | 24 dbplyr-2.6.0/dbplyr/R/verb-distinct.R | 95 dbplyr-2.6.0/dbplyr/R/verb-do-query.R | 17 dbplyr-2.6.0/dbplyr/R/verb-do.R | 19 dbplyr-2.6.0/dbplyr/R/verb-expand.R | 47 dbplyr-2.6.0/dbplyr/R/verb-explain.R |only dbplyr-2.6.0/dbplyr/R/verb-fill.R | 138 - dbplyr-2.6.0/dbplyr/R/verb-filter.R | 195 +- dbplyr-2.6.0/dbplyr/R/verb-group_by.R | 39 dbplyr-2.6.0/dbplyr/R/verb-head.R | 32 dbplyr-2.6.0/dbplyr/R/verb-joins.R | 566 +++-- dbplyr-2.6.0/dbplyr/R/verb-mutate.R | 201 +- dbplyr-2.6.0/dbplyr/R/verb-pivot-longer.R | 73 dbplyr-2.6.0/dbplyr/R/verb-pivot-wider.R | 229 +- dbplyr-2.6.0/dbplyr/R/verb-pull.R | 6 dbplyr-2.6.0/dbplyr/R/verb-select.R | 175 + dbplyr-2.6.0/dbplyr/R/verb-set-ops.R | 46 dbplyr-2.6.0/dbplyr/R/verb-slice.R | 171 - dbplyr-2.6.0/dbplyr/R/verb-summarise.R | 202 +- dbplyr-2.6.0/dbplyr/R/verb-uncount.R | 18 dbplyr-2.6.0/dbplyr/R/verb-window.R | 56 dbplyr-2.6.0/dbplyr/R/with-dialect.R |only dbplyr-2.6.0/dbplyr/R/zzz.R | 6 dbplyr-2.6.0/dbplyr/README.md | 14 dbplyr-2.6.0/dbplyr/build/stage23.rdb |binary dbplyr-2.6.0/dbplyr/build/vignette.rds |binary dbplyr-2.6.0/dbplyr/inst/doc/dbplyr.R | 68 dbplyr-2.6.0/dbplyr/inst/doc/dbplyr.Rmd | 95 dbplyr-2.6.0/dbplyr/inst/doc/dbplyr.html | 231 +- dbplyr-2.6.0/dbplyr/inst/doc/new-backend.R | 129 + dbplyr-2.6.0/dbplyr/inst/doc/new-backend.Rmd | 234 ++ dbplyr-2.6.0/dbplyr/inst/doc/new-backend.html | 300 ++- dbplyr-2.6.0/dbplyr/inst/doc/reprex.R | 28 dbplyr-2.6.0/dbplyr/inst/doc/reprex.Rmd | 31 dbplyr-2.6.0/dbplyr/inst/doc/reprex.html | 42 dbplyr-2.6.0/dbplyr/inst/doc/translation-function.R | 148 + dbplyr-2.6.0/dbplyr/inst/doc/translation-function.Rmd | 339 ++- dbplyr-2.6.0/dbplyr/inst/doc/translation-function.html | 607 ++++-- dbplyr-2.6.0/dbplyr/inst/doc/translation-verb.R | 45 dbplyr-2.6.0/dbplyr/inst/doc/translation-verb.Rmd | 77 dbplyr-2.6.0/dbplyr/inst/doc/translation-verb.html | 153 - dbplyr-2.6.0/dbplyr/man/arrange.tbl_lazy.Rd | 10 dbplyr-2.6.0/dbplyr/man/as.sql.Rd |only dbplyr-2.6.0/dbplyr/man/backend-access.Rd | 25 dbplyr-2.6.0/dbplyr/man/backend-adbc.Rd |only dbplyr-2.6.0/dbplyr/man/backend-ansi.Rd |only dbplyr-2.6.0/dbplyr/man/backend-db2.Rd |only dbplyr-2.6.0/dbplyr/man/backend-hana.Rd | 23 dbplyr-2.6.0/dbplyr/man/backend-hive.Rd | 30 dbplyr-2.6.0/dbplyr/man/backend-impala.Rd | 23 dbplyr-2.6.0/dbplyr/man/backend-jdbc.Rd |only dbplyr-2.6.0/dbplyr/man/backend-mssql.Rd | 40 dbplyr-2.6.0/dbplyr/man/backend-mysql.Rd | 25 dbplyr-2.6.0/dbplyr/man/backend-odbc.Rd | 30 dbplyr-2.6.0/dbplyr/man/backend-oracle.Rd | 23 dbplyr-2.6.0/dbplyr/man/backend-postgres.Rd | 23 dbplyr-2.6.0/dbplyr/man/backend-redshift.Rd | 24 dbplyr-2.6.0/dbplyr/man/backend-snowflake.Rd | 16 dbplyr-2.6.0/dbplyr/man/backend-spark-sql.Rd | 31 dbplyr-2.6.0/dbplyr/man/backend-sqlite.Rd | 24 dbplyr-2.6.0/dbplyr/man/backend-teradata.Rd | 21 dbplyr-2.6.0/dbplyr/man/bind_queries.Rd |only dbplyr-2.6.0/dbplyr/man/build_sql.Rd | 30 dbplyr-2.6.0/dbplyr/man/collapse.tbl_sql.Rd | 53 dbplyr-2.6.0/dbplyr/man/collect.tbl_sql.Rd |only dbplyr-2.6.0/dbplyr/man/complete.tbl_lazy.Rd | 6 dbplyr-2.6.0/dbplyr/man/compute.tbl_sql.Rd |only dbplyr-2.6.0/dbplyr/man/copy_inline.Rd | 8 dbplyr-2.6.0/dbplyr/man/copy_to.src_sql.Rd | 12 dbplyr-2.6.0/dbplyr/man/count.tbl_lazy.Rd | 8 dbplyr-2.6.0/dbplyr/man/db-io.Rd | 17 dbplyr-2.6.0/dbplyr/man/db-misc.Rd | 40 dbplyr-2.6.0/dbplyr/man/db-sql.Rd | 105 - dbplyr-2.6.0/dbplyr/man/dbplyr-package.Rd | 3 dbplyr-2.6.0/dbplyr/man/dbplyr-slice.Rd | 18 dbplyr-2.6.0/dbplyr/man/distinct.tbl_lazy.Rd | 8 dbplyr-2.6.0/dbplyr/man/do.tbl_sql.Rd | 5 dbplyr-2.6.0/dbplyr/man/dot-sql.Rd |only dbplyr-2.6.0/dbplyr/man/escape.Rd | 70 dbplyr-2.6.0/dbplyr/man/escape_ansi.Rd |only dbplyr-2.6.0/dbplyr/man/expand.tbl_lazy.Rd | 8 dbplyr-2.6.0/dbplyr/man/fill.tbl_lazy.Rd | 12 dbplyr-2.6.0/dbplyr/man/filter.tbl_lazy.Rd | 25 dbplyr-2.6.0/dbplyr/man/get_returned_rows.Rd | 8 dbplyr-2.6.0/dbplyr/man/group_by.tbl_lazy.Rd | 18 dbplyr-2.6.0/dbplyr/man/head.tbl_lazy.Rd | 10 dbplyr-2.6.0/dbplyr/man/ident.Rd | 24 dbplyr-2.6.0/dbplyr/man/ident_q.Rd | 4 dbplyr-2.6.0/dbplyr/man/in_schema.Rd | 4 dbplyr-2.6.0/dbplyr/man/intersect.tbl_lazy.Rd | 34 dbplyr-2.6.0/dbplyr/man/join.tbl_sql.Rd | 62 dbplyr-2.6.0/dbplyr/man/last_sql.Rd |only dbplyr-2.6.0/dbplyr/man/lazy_base_query.Rd |only dbplyr-2.6.0/dbplyr/man/lazy_ops.Rd | 6 dbplyr-2.6.0/dbplyr/man/memdb.Rd |only dbplyr-2.6.0/dbplyr/man/mutate.tbl_lazy.Rd | 33 dbplyr-2.6.0/dbplyr/man/partial_eval.Rd | 23 dbplyr-2.6.0/dbplyr/man/pivot_longer.tbl_lazy.Rd | 2 dbplyr-2.6.0/dbplyr/man/pivot_wider.tbl_lazy.Rd | 56 dbplyr-2.6.0/dbplyr/man/pull.tbl_sql.Rd | 6 dbplyr-2.6.0/dbplyr/man/remote_name.Rd | 18 dbplyr-2.6.0/dbplyr/man/replace_na.tbl_lazy.Rd | 4 dbplyr-2.6.0/dbplyr/man/rows-db.Rd | 41 dbplyr-2.6.0/dbplyr/man/select.tbl_lazy.Rd | 8 dbplyr-2.6.0/dbplyr/man/show_query.Rd |only dbplyr-2.6.0/dbplyr/man/sql.Rd | 28 dbplyr-2.6.0/dbplyr/man/sql_build.Rd | 129 - dbplyr-2.6.0/dbplyr/man/sql_dialect.Rd |only dbplyr-2.6.0/dbplyr/man/sql_expr.Rd | 10 dbplyr-2.6.0/dbplyr/man/sql_glue.Rd |only dbplyr-2.6.0/dbplyr/man/sql_optimise.Rd |only dbplyr-2.6.0/dbplyr/man/sql_options.Rd | 4 dbplyr-2.6.0/dbplyr/man/sql_query_insert.Rd | 9 dbplyr-2.6.0/dbplyr/man/sql_quote.Rd | 13 dbplyr-2.6.0/dbplyr/man/sql_translation_agg.Rd |only dbplyr-2.6.0/dbplyr/man/sql_translation_scalar.Rd |only dbplyr-2.6.0/dbplyr/man/sql_translation_string.Rd |only dbplyr-2.6.0/dbplyr/man/sql_translation_window.Rd |only dbplyr-2.6.0/dbplyr/man/sql_variant.Rd | 134 - dbplyr-2.6.0/dbplyr/man/src_memdb.Rd |only dbplyr-2.6.0/dbplyr/man/src_sql.Rd | 10 dbplyr-2.6.0/dbplyr/man/summarise.tbl_lazy.Rd | 14 dbplyr-2.6.0/dbplyr/man/tbl.src_dbi.Rd | 95 dbplyr-2.6.0/dbplyr/man/tbl_lazy.Rd | 7 dbplyr-2.6.0/dbplyr/man/tbl_sql.Rd | 23 dbplyr-2.6.0/dbplyr/man/translate_sql.Rd | 10 dbplyr-2.6.0/dbplyr/man/window_order.Rd | 16 dbplyr-2.6.0/dbplyr/man/with_dialect.Rd |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-.md | 134 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-access.md | 36 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-db2.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-hana.md | 48 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-hive.md | 6 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-impala.md | 2 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-mssql.md | 365 ++- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-mysql.md | 18 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-oracle.md | 124 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-postgres.md | 84 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-redshift.md | 33 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-snowflake.md | 41 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-spark-sql.md | 9 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-sqlite.md | 12 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/backend-teradata.md | 58 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/bind-queries.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/db-io.md | 19 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/db-sql.md | 119 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/db.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/escape.md | 12 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/ident.md | 8 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/join-by-compat.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/memdb.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query-join.md | 187 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query-rf-join.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query-select.md | 19 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query-semi-join.md | 82 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query-set-op.md | 68 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query-union.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/query.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/rows.md | 230 +- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/schema.md | 4 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/sql-build.md | 2 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/sql-clause.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/sql-dialect.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/sql-glue.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/sql-quote.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/sql-superseded.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/tbl-lazy.md | 10 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/tbl-sql.md | 37 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/tidyeval-across.md | 136 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-aggregate.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-conditional.md | 67 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-cut.md | 26 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-helpers.md | 32 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-scalar.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-string.md | 8 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql-window.md | 79 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/translate-sql.md | 24 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/utils-check.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-arrange.md | 221 +- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-collect.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-compute.md | 23 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-copy-inline.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-copy-to.md | 93 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-count.md | 42 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-distinct.md | 67 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-do.md | 18 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-expand.md | 125 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-explain.md |only dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-fill.md | 140 - dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-filter.md | 156 + dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-group_by.md | 19 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-joins.md | 309 +-- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-mutate.md | 203 +- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-pivot-longer.md | 84 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-pivot-wider.md | 57 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-pull.md | 8 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-select.md | 200 +- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-set-ops.md | 138 + dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-slice.md | 240 +- dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-summarise.md | 84 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-uncount.md | 4 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/verb-window.md | 56 dbplyr-2.6.0/dbplyr/tests/testthat/_snaps/with-dialect.md |only dbplyr-2.6.0/dbplyr/tests/testthat/helper-expectation.R |only dbplyr-2.6.0/dbplyr/tests/testthat/helper-src.R | 114 - dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-.R | 215 +- dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-access.R | 134 - dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-adbc.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-db2.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-hana.R | 26 dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-hive.R | 30 dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-impala.R | 26 dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-jdbc.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-mssql.R | 678 ++++--- dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-mysql.R | 175 - dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-odbc.R | 33 dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-oracle.R | 168 + dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-postgres-old.R | 12 dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-postgres.R | 413 ++-- dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-redshift.R | 189 + dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-snowflake.R | 509 ++++- dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-spark-sql.R | 90 dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-sqlite.R | 137 - dbplyr-2.6.0/dbplyr/tests/testthat/test-backend-teradata.R | 163 + dbplyr-2.6.0/dbplyr/tests/testthat/test-bind-queries.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-db-io.R | 25 dbplyr-2.6.0/dbplyr/tests/testthat/test-db-sql.R | 51 dbplyr-2.6.0/dbplyr/tests/testthat/test-db.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-escape.R | 119 - dbplyr-2.6.0/dbplyr/tests/testthat/test-ident.R | 13 dbplyr-2.6.0/dbplyr/tests/testthat/test-join-by-compat.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-memdb.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-query-join.R | 155 - dbplyr-2.6.0/dbplyr/tests/testthat/test-query-rf-join.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-query-select.R | 67 dbplyr-2.6.0/dbplyr/tests/testthat/test-query-semi-join.R | 49 dbplyr-2.6.0/dbplyr/tests/testthat/test-query-set-op.R | 26 dbplyr-2.6.0/dbplyr/tests/testthat/test-query-union.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-query.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-remote.R | 109 - dbplyr-2.6.0/dbplyr/tests/testthat/test-rows.R | 484 +++-- dbplyr-2.6.0/dbplyr/tests/testthat/test-schema.R | 26 dbplyr-2.6.0/dbplyr/tests/testthat/test-sql-build.R | 6 dbplyr-2.6.0/dbplyr/tests/testthat/test-sql-clause.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-sql-dialect.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-sql-glue.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-sql-quote.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-sql-superseded.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-sql.R | 30 dbplyr-2.6.0/dbplyr/tests/testthat/test-src_dbi.R | 15 dbplyr-2.6.0/dbplyr/tests/testthat/test-table-name.R | 34 dbplyr-2.6.0/dbplyr/tests/testthat/test-tbl-lazy.R | 20 dbplyr-2.6.0/dbplyr/tests/testthat/test-tbl-sql.R | 66 dbplyr-2.6.0/dbplyr/tests/testthat/test-tidyeval-across.R | 266 +- dbplyr-2.6.0/dbplyr/tests/testthat/test-tidyeval.R | 42 dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-aggregate.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-conditional.R | 325 ++- dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-cut.R | 176 - dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-helpers.R | 82 dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-scalar.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-string.R | 140 - dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql-window.R | 337 +-- dbplyr-2.6.0/dbplyr/tests/testthat/test-translate-sql.R | 241 +- dbplyr-2.6.0/dbplyr/tests/testthat/test-utils-check.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-utils.R | 8 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-arrange.R | 145 + dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-collapse.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-collect.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-compute.R | 129 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-copy-inline.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-copy-to.R | 133 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-count.R | 33 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-distinct.R | 228 +- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-do.R | 66 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-expand.R | 69 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-explain.R |only dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-fill.R | 135 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-filter.R | 385 ++-- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-group_by.R | 98 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-head.R | 30 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-joins.R | 844 +++++--- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-mutate.R | 391 ++-- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-pivot-longer.R | 125 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-pivot-wider.R | 268 +- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-pull.R | 33 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-select.R | 333 +-- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-set-ops.R | 170 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-slice.R | 120 - dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-summarise.R | 197 +- dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-uncount.R | 45 dbplyr-2.6.0/dbplyr/tests/testthat/test-verb-window.R | 34 dbplyr-2.6.0/dbplyr/tests/testthat/test-with-dialect.R |only dbplyr-2.6.0/dbplyr/vignettes/dbplyr.Rmd | 95 dbplyr-2.6.0/dbplyr/vignettes/new-backend.Rmd | 234 ++ dbplyr-2.6.0/dbplyr/vignettes/reprex.Rmd | 31 dbplyr-2.6.0/dbplyr/vignettes/setup/_mysql.Rmd | 17 dbplyr-2.6.0/dbplyr/vignettes/setup/_postgres.Rmd | 9 dbplyr-2.6.0/dbplyr/vignettes/translation-function.Rmd | 339 ++- dbplyr-2.6.0/dbplyr/vignettes/translation-verb.Rmd | 77 424 files changed, 19982 insertions(+), 14173 deletions(-)
Title: Global and Local Admixture Inference in Polyploids
Description: Provides functions to perform global (genome-wide) and local admixture inference
from bi- and multi-allelic marker dosages (discrete or continuous) in polyploid species.
Author: Simon Rio [aut, cre] ,
Tristan Mary-Huard [aut] ,
Franck Gauthier [aut]
Maintainer: Simon Rio <simon.rio@cirad.fr>
Diff between AdmixPoly versions 1.0.0 dated 2026-06-08 and 1.0.1 dated 2026-06-17
DESCRIPTION | 9 MD5 | 38 +- R/AdmixGlobal.R | 4 R/AdmixLocal.R | 43 +- R/RcppExports.R | 4 R/ReadHPA.R | 18 - R/ReadVCF.R | 15 - R/SimulatePop.R | 27 - inst/doc/AdmixPoly-vignette.html | 14 man/AdmixLocal.Rd | 8 src/AdmixGlobal.cpp | 308 ++++++++++++--------- src/AdmixLocal.cpp | 560 ++++++++++++++++++++------------------- src/AdmixPoly_types.h | 34 -- src/AdmixUtils.h | 388 +++++++++++++-------------- src/RcppExports.cpp | 19 - src/ReadFile.cpp | 221 ++++++++++----- src/SimulatePop.cpp | 199 ++++++++----- tests |only 18 files changed, 1056 insertions(+), 853 deletions(-)
Title: Ordered Panel
Description: The ordered panel methodology (Zezulinski et al 2025 <doi:10.1159/000545366>) provides a structured framework for identifying and organizing sets of biomarkers, such as genetic variants, that distinguish between positive and negative subjects in a study when only a training cohort is available. This approach is particularly useful in situations where an independent validation cohort does not yet exist, rendering conventional performance metrics such as the receiver operating characteristic (ROC) curve and area under the ROC curve (AUC) inappropriate or potentially misleading. The methodology emphasizes transparent construction and evaluation of ordered signatures of biomarkers, allowing investigators to examine operating characteristics without establishing predictive performance.
Author: Tingting Zhan [aut, cre] ,
Aejaz Sayeed [dtc]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between ordPanel versions 0.1.1 dated 2026-03-19 and 0.1.2 dated 2026-06-17
DESCRIPTION | 20 +++++++++++--------- MD5 | 6 +++--- build/partial.rdb |binary man/ordPanel-package.Rd | 6 ++++++ 4 files changed, 20 insertions(+), 12 deletions(-)
Title: Functional Guilds, Invasion Status, Endemism, and Rarity of Ants
Description: Provides functions for the analysis of ant communities, aiming to
standardize workflows in myrmecology. The package automates the assignment
of species to functional guilds based on trophic strategies, feeding
habits, and foraging behavior, using established classification frameworks
(Silva et al., 2015 <doi:10.7476/9788574554419>; Silvestre et al., 2003
<isbn:9588151236>; Delabie et al., 2000
<https://www.researchgate.net/publication/44961742_Sampling_Ground-Dwelling_Ants_Case_Studies_from_the_World%27s_Rain_Forests>),
and also includes a novel classification system implemented within the
package, developed from ant species occurring in urban environments.
It also includes routines to flag exotic species of Brazil (Vieira, 2025,
unpublished master's thesis), identify endemic species (Silva et al., 2025
<doi:10.37885/250920259>), and classify species rarity and rarity forms
of the Atlantic Forest (Silva et al., 2024 <doi:10.1016/j.biocon.2024.110640>).
The [...truncated...]
Author: Debora C. O. Goncalves [aut, cre],
Nathalia S. Silva [aut],
Rony P. S. Almeida [aut],
Livia P. Prado [aut],
Maria S. C. Morini [aut]
Maintainer: Debora C. O. Goncalves <debora_cog@outlook.com>
Diff between AntClassify versions 0.2.1 dated 2026-05-07 and 0.2.2 dated 2026-06-17
DESCRIPTION | 8 MD5 | 22 NAMESPACE | 2 R/antclassify.R | 18 R/antclassify_community.R | 91 ++-- R/assign_guild_ants.R | 91 +--- R/check_endemic_atlantic_ants.R | 62 +- R/check_exotic_ants.R | 65 +- R/check_rarity_atlantic_ants.R | 67 +-- inst/doc/antclassify_workflow.html | 819 ++++++++++++++++--------------------- man/antclassify.Rd | 12 man/antclassify_community.Rd | 8 12 files changed, 606 insertions(+), 659 deletions(-)
Title: Survey Instrument Workflows
Description: Supports survey research workflows built around a typed
instrument object (the sframe). Features include visual instrument
design via a browser-based builder or 'Shiny' studio, export to a
self-contained static HTML survey, an embeddable 'Shiny' module, SHA-256
integrity-checked serialisation to the '.sframe' format, multi-page survey
rendering, branching logic, response quality checking, scale scoring,
psychometric diagnostics, analysis-plan execution, model syntax planning,
an interactive response dashboard, codebook generation, and reproducible
HTML reporting.
Author: Mohammed Ali Sharafuddin [aut, cre]
Maintainer: Mohammed Ali Sharafuddin <mohammedali.page@gmail.com>
Diff between surveyframe versions 0.3.1 dated 2026-06-02 and 0.3.2 dated 2026-06-17
DESCRIPTION | 10 MD5 | 121 +- NAMESPACE | 18 NEWS.md | 54 + R/analysis_plan.R | 45 R/dashboard.R | 62 - R/google_sheets.R | 91 -- R/launch_studio.R | 2 R/model_layer.R | 16 R/psychometrics.R | 15 R/render_survey.R | 10 R/reporting.R | 137 ++- R/sf_branch.R | 2 R/sf_component_methods.R |only R/statistics_reports.R | 10 R/studio_builder.R | 20 R/survey_module.R | 4 build/vignette.rds |binary inst/CITATION | 16 inst/builder/survey_builder.html | 961 +++++++++++++++++++-- inst/doc/analysing-survey-responses.R | 46 - inst/doc/analysing-survey-responses.Rmd | 63 + inst/doc/analysing-survey-responses.html | 989 ++++++++++----------- inst/doc/deploying-and-collecting.R |only inst/doc/deploying-and-collecting.Rmd |only inst/doc/deploying-and-collecting.html |only inst/doc/efa-cfa-sem-pls-syntax.Rmd | 11 inst/doc/efa-cfa-sem-pls-syntax.html | 13 inst/doc/scale-reliability-validity.R | 23 inst/doc/scale-reliability-validity.Rmd | 36 inst/doc/scale-reliability-validity.html | 287 ++++-- inst/doc/surveybuilder-gui-overview.Rmd | 14 inst/doc/surveybuilder-gui-overview.html | 19 inst/doc/surveyframe.R | 96 +- inst/doc/surveyframe.Rmd | 167 +++ inst/doc/surveyframe.html | 1045 +++++++++++++++++++---- inst/extdata/surveyframe_input_types_demo.sframe | 991 ++++++++++++++++----- inst/extdata/tourism_services_demo.sframe | 710 +++++++++++++++ inst/shiny/app.R | 769 ++++++++++------ inst/shiny/dashboard/app.R | 9 inst/static_survey/collector_template.gs |only inst/static_survey/template.html | 45 inst/templates/report.qmd | 115 ++ man/format.sf_branch.Rd |only man/format.sf_check.Rd |only man/format.sf_choices.Rd |only man/format.sf_item.Rd |only man/format.sf_model.Rd |only man/format.sf_scale.Rd |only man/launch_dashboard.Rd | 26 man/launch_studio.Rd | 2 man/print.sf_branch.Rd |only man/print.sf_check.Rd |only man/print.sf_choices.Rd |only man/print.sf_item.Rd |only man/print.sf_model.Rd |only man/print.sf_scale.Rd |only man/render_survey.Rd | 10 man/sf_branch.Rd | 2 man/sframe_builder_validate_draft.Rd | 6 man/summary.sf_branch.Rd |only man/summary.sf_check.Rd |only man/summary.sf_choices.Rd |only man/summary.sf_item.Rd |only man/summary.sf_model.Rd |only man/summary.sf_scale.Rd |only man/survey_module_ui.Rd | 2 tests/testthat/test-component-methods.R |only vignettes/analysing-survey-responses.Rmd | 63 + vignettes/deploying-and-collecting.Rmd |only vignettes/efa-cfa-sem-pls-syntax.Rmd | 11 vignettes/scale-reliability-validity.Rmd | 36 vignettes/surveybuilder-gui-overview.Rmd | 14 vignettes/surveyframe.Rmd | 167 +++ 74 files changed, 5647 insertions(+), 1734 deletions(-)
Title: Principal Coordinates of Phylogenetic Structure
Description: Set of functions for analysis of Principal Coordinates of Phylogenetic Structure (PCPS).
Author: Vanderlei Julio Debastiani [aut, cre]
Maintainer: Vanderlei Julio Debastiani <vanderleidebastiani@yahoo.com.br>
Diff between PCPS versions 1.0.8 dated 2025-08-23 and 1.0.9 dated 2026-06-17
PCPS-1.0.8/PCPS/R/FUN.ADONIS.R |only PCPS-1.0.9/PCPS/DESCRIPTION | 19 +++-- PCPS-1.0.9/PCPS/MD5 | 16 ++-- PCPS-1.0.9/PCPS/NAMESPACE | 4 - PCPS-1.0.9/PCPS/R/FUN.ADONIS2.global.R |only PCPS-1.0.9/PCPS/R/FUN.ADONIS2.margin.R |only PCPS-1.0.9/PCPS/R/globals.R |only PCPS-1.0.9/PCPS/R/pcps.sig.R | 80 ++---------------------- PCPS-1.0.9/PCPS/R/select.pcpsmethod.R | 31 ++++----- PCPS-1.0.9/PCPS/man/pcps.sig.Rd | 102 ++++++++----------------------- PCPS-1.0.9/PCPS/man/select.pcpsmethod.Rd | 6 - 11 files changed, 76 insertions(+), 182 deletions(-)
Title: Information-Based Stability and Synchrony Measures
Description: Provides functions to compute a continuum of information-based measures for quantifying the temporal stability of populations, communities, and ecosystems, as well as their associated synchrony, based on species (or species assemblage) biomass, or other key variables. When biodiversity data are available, the package also enables the assessment of the corresponding diversity–stability and diversity–synchrony relationships. All measures are applicable in both temporal and spatial contexts. The theoretical and methodological background is detailed in Chao et al. (2025)
<doi:10.1101/2025.08.20.671203>.
Author: Anne Chao [aut, cre],
Yu-Ti Lee [aut],
Keng-Lei Lin [aut],
Po-Yen Chuang [aut]
Maintainer: Anne Chao <chao@stat.nthu.edu.tw>
Diff between iSTAY versions 1.0.0 dated 2025-10-28 and 1.1.0 dated 2026-06-17
iSTAY-1.0.0/iSTAY/data/Data_Jena_76_metapopulations.rda |only iSTAY-1.0.0/iSTAY/man/Data_Jena_76_metapopulations.Rd |only iSTAY-1.0.0/iSTAY/man/iStay_package.Rd |only iSTAY-1.1.0/iSTAY/DESCRIPTION | 37 iSTAY-1.1.0/iSTAY/MD5 | 34 iSTAY-1.1.0/iSTAY/R/Main_Function.R | 973 ++++++-- iSTAY-1.1.0/iSTAY/data/Data_Jena_76_community_populations.rda |only iSTAY-1.1.0/iSTAY/inst/doc/iStay.R | 397 ++- iSTAY-1.1.0/iSTAY/inst/doc/iStay.Rmd | 573 +++-- iSTAY-1.1.0/iSTAY/inst/doc/iStay.html | 1100 +++++----- iSTAY-1.1.0/iSTAY/man/Data_Jena_20_metacommunities.Rd | 2 iSTAY-1.1.0/iSTAY/man/Data_Jena_462_populations.Rd | 4 iSTAY-1.1.0/iSTAY/man/Data_Jena_76_community_populations.Rd |only iSTAY-1.1.0/iSTAY/man/Data_Jena_hierarchical_structure.Rd | 5 iSTAY-1.1.0/iSTAY/man/ggiSTAY_analysis.Rd | 198 + iSTAY-1.1.0/iSTAY/man/ggiSTAY_qprofile.Rd | 116 - iSTAY-1.1.0/iSTAY/man/iSTAY_Hier.Rd | 4 iSTAY-1.1.0/iSTAY/man/iSTAY_Multiple.Rd | 61 iSTAY-1.1.0/iSTAY/man/iSTAY_Single.Rd | 26 iSTAY-1.1.0/iSTAY/man/iSTAY_package.Rd |only iSTAY-1.1.0/iSTAY/vignettes/iStay.Rmd | 573 +++-- 21 files changed, 2734 insertions(+), 1369 deletions(-)
Title: Parse Eye-Tracking Data into Fixations
Description: Eye-tracking data must be transformed into fixations and saccades before it can be analyzed. This package provides a non-parametric speed-based approach to do this on a trial basis. The method is especially useful when there are large differences in data quality, as the thresholds are adjusted accordingly. The same pre-processing procedure can be applied to all participants, while accounting for individual differences in data quality. The method is described in van Renswoude et al. (2018) <doi:10.3758/s13428-017-0909-3>.
Author: Ingmar Visser [aut, cre],
Daan van Renswoude [aut]
Maintainer: Ingmar Visser <i.visser@uva.nl>
This is a re-admission after prior archival of version 1.3 dated 2020-02-09
Diff between gazepath versions 1.3 dated 2020-02-09 and 1.4 dated 2026-06-17
DESCRIPTION | 23 +++++++++++------------ MD5 | 36 +++++++++++++++++++----------------- NEWS |only R/Eyelink.R | 4 ++-- R/GazePath.R | 10 +++++----- R/Interpolate.R | 4 ++-- R/Mould_vel.R | 2 +- R/Tobii.R | 4 ++-- R/comhull.R | 2 +- R/complete.R | 2 +- R/fixationANDsaccade.R | 4 ++-- R/plot.gazepath.R | 2 +- R/pnt.in.poly.R | 10 +++++----- R/summary.gazepath.R | 2 +- build |only data/eye_dat.RData |binary data/screen.RData |binary man/GUI.Rd | 4 +++- man/GazePath.Rd | 4 +++- man/gazepath-package.Rd | 14 ++++++++------ 20 files changed, 67 insertions(+), 60 deletions(-)
Title: Genetic Association Analysis
Description: This is a companion to Henry-Stewart talk by Zhao (2026, <doi:10.69645/FRFQ9519>),
which gathers information, metadata and scripts to showcase modern genetic analysis -- ranging from testing
of polymorphic variant(s) for Hardy-Weinberg equilibrium, association with traits using genetic and statistical
models, Bayesian implementation, power calculation in study design, and genetic annotation. It also covers
R integration with the Linux environment, GitHub, package creation and web applications. The earlier version
by Zhao (2009, <doi:10.69645/DCRY5578>) provides a brief introduction to these topics.
Author: Jing Hua Zhao [aut, cre] ,
Benjamin Altmann [ctb],
Brian Ripley [ctb]
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between gaawr2 versions 0.0.7 dated 2026-03-10 and 0.0.8 dated 2026-06-17
gaawr2-0.0.7/gaawr2/inst/doc/index.html |only gaawr2-0.0.7/gaawr2/inst/scripts/cran.sh |only gaawr2-0.0.8/gaawr2/DESCRIPTION | 18 gaawr2-0.0.8/gaawr2/MD5 | 33 gaawr2-0.0.8/gaawr2/NEWS.md | 8 gaawr2-0.0.8/gaawr2/build/partial.rdb |binary gaawr2-0.0.8/gaawr2/build/vignette.rds |only gaawr2-0.0.8/gaawr2/data/DiaHealth.rda |binary gaawr2-0.0.8/gaawr2/data/diabetes.rda |binary gaawr2-0.0.8/gaawr2/inst/doc/gaawr2.R | 305 - gaawr2-0.0.8/gaawr2/inst/doc/gaawr2.Rmd | 572 --- gaawr2-0.0.8/gaawr2/inst/doc/gaawr2.html | 5749 ------------------------------- gaawr2-0.0.8/gaawr2/inst/doc/web.R | 146 gaawr2-0.0.8/gaawr2/inst/doc/web.Rmd | 320 - gaawr2-0.0.8/gaawr2/inst/doc/web.html | 1550 -------- gaawr2-0.0.8/gaawr2/man/DiaHealth.Rd | 2 gaawr2-0.0.8/gaawr2/man/diabetes.Rd | 2 gaawr2-0.0.8/gaawr2/man/gaawr2.Rd | 2 gaawr2-0.0.8/gaawr2/vignettes |only 19 files changed, 102 insertions(+), 8605 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws.common versions 0.8.9 dated 2026-02-17 and 0.8.10 dated 2026-06-17
DESCRIPTION | 8 +++---- MD5 | 32 ++++++++++++++--------------- NEWS.md | 7 ++++++ R/credential_providers.R | 5 +++- R/credentials.R | 12 +++++++--- R/handlers_restjson.R | 24 +++++---------------- R/signer_bearer.R | 11 ++++++++- R/signer_v1.R | 2 - R/signer_v4.R | 12 ++++++++++ man/locate_credentials.Rd | 4 ++- man/new_handlers.Rd | 10 ++++----- man/new_operation.Rd | 10 ++++----- man/new_request.Rd | 10 ++++----- man/new_service.Rd | 10 ++++----- man/send_request.Rd | 10 ++++----- src/populate.cpp | 2 - tests/testthat/test_credential_providers.R | 10 +++++++++ 17 files changed, 106 insertions(+), 73 deletions(-)
Title: Methods and Classes for the OMOP Common Data Model
Description: Provides definitions of core classes and methods used by analytic
pipelines that query the OMOP (Observational Medical Outcomes Partnership)
common data model.
Author: Marti Catala [aut, cre] ,
Edward Burn [aut] ,
Mike Du [ctb] ,
Yuchen Guo [ctb] ,
Adam Black [ctb] ,
Marta Alcalde-Herraiz [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between omopgenerics versions 1.3.7 dated 2026-03-07 and 1.4.0 dated 2026-06-17
DESCRIPTION | 8 MD5 | 660 - NAMESPACE | 594 - NEWS.md | 45 R/OMOPGenerics-package.R | 24 R/addSettings.R | 156 R/arrange.R | 60 R/assert.R | 1751 ++-- R/casting.R | 184 R/cdmFromTables.R | 208 R/cdmSelect.R | 100 R/classAchillesTable.R | 271 R/classCdmReference.R | 2242 ++--- R/classCdmSource.R | 304 R/classCdmTable.R | 472 - R/classCodeSearch.R |only R/classCodelist.R | 602 - R/classCodelistWithDetails.R | 333 R/classCohortTable.R | 1583 ++-- R/classConceptSetExpression.R | 459 - R/classOmopTable.R | 285 R/classReadOnly.R |only R/classSummarisedResult.R | 2100 ++--- R/cohortCodelist.R | 352 R/cohortCount.R | 166 R/columns.R | 506 - R/combineStrata.R | 92 R/compute.R | 215 R/documentationHelpers.R |only R/exportCodelist.R | 142 R/exportCodelistWithDetails.R |only R/exportConceptSetExpression.R | 144 R/exportSummarisedResult.R | 431 - R/filter.R | 660 + R/importCodelist.R | 113 R/importCodelistWithDetails.R |only R/importConceptSetExpression.R | 258 R/importSummarisedResult.R | 178 R/indexes.R | 534 - R/logger.R | 816 +- R/methodAttrition.R | 172 R/methodBind.R | 734 - R/methodCdmDisconnect.R | 114 R/methodCdmTableFromSource.R | 76 R/methodDropSourceTable.R | 175 R/methodDropTable.R | 66 R/methodInsertCdmTo.R | 79 R/methodInsertFromSource.R | 88 R/methodInsertTable.R | 179 R/methodListSourceTables.R | 87 R/methodReadSourceTable.R | 140 R/methodSettings.R | 242 R/methodSuppress.R | 474 - R/methodTidy.R | 184 R/omopDataFolder.R | 92 R/overwriteClasses.R | 860 +- R/pivot.R | 221 R/recordCohortAttrition.R | 293 R/resultType.R |only R/split.R | 628 - R/summary.R | 972 +- R/sysdata.rda |binary R/unite.R | 477 - R/utilities.R | 866 +- R/validate.R | 2336 +++--- README.md | 628 - build/vignette.rds |binary inst/Instructions.xlsx |only inst/WORDLIST | 92 inst/cohorts_for_mock/oa_desc.json | 176 inst/cohorts_for_mock/oa_no_desc.json | 174 inst/concepts_for_mock/oa_desc.json | 24 inst/concepts_for_mock/oa_no_desc.json | 24 inst/doc/cdm_reference.R | 54 inst/doc/cdm_reference.Rmd | 200 inst/doc/cdm_reference.html | 1187 +-- inst/doc/codelists.R | 156 inst/doc/codelists.Rmd | 207 inst/doc/codelists.html | 912 +- inst/doc/cohorts.R | 224 inst/doc/cohorts.Rmd | 444 - inst/doc/cohorts.html | 1324 +-- inst/doc/expanding_omopgenerics.R | 284 inst/doc/expanding_omopgenerics.Rmd | 598 - inst/doc/expanding_omopgenerics.html | 1318 +-- inst/doc/logging.R | 190 inst/doc/logging.Rmd | 276 inst/doc/logging.html | 1083 +- inst/doc/reexport.R | 12 inst/doc/reexport.Rmd | 202 inst/doc/reexport.html | 683 - inst/doc/summarised_result.R | 472 - inst/doc/summarised_result.Rmd | 898 +- inst/doc/summarised_result.html | 8686 +++++++++++------------ inst/doc/suppression.R | 94 inst/doc/suppression.Rmd | 190 inst/doc/suppression.html | 1019 +- inst/not_all_concept_sets/acetaminophen.json | 24 inst/not_all_concept_sets/cohort_def.json | 5706 +++++++-------- inst/not_all_concept_sets/influenza.json | 24 man/achillesColumns.Rd | 60 man/achillesTables.Rd | 48 man/addSettings.Rd | 102 man/additionalColumns.Rd | 96 man/assertCharacter.Rd | 89 man/assertChoice.Rd | 87 man/assertClass.Rd | 83 man/assertDate.Rd | 87 man/assertDoc.Rd |only man/assertList.Rd | 87 man/assertLogical.Rd | 81 man/assertNumeric.Rd | 99 man/assertTable.Rd | 95 man/assertTrue.Rd | 52 man/attrition.Rd | 34 man/attrition.cohort_table.Rd | 94 man/bind.Rd | 34 man/bind.cohort_table.Rd | 118 man/bind.summarised_result.Rd | 100 man/cash-.cdm_reference.Rd | 86 man/cash-set-.cdm_reference.Rd | 88 man/castDoc.Rd |only man/cdmAssignTableDoc.Rd |only man/cdmClasses.Rd | 34 man/cdmDisconnect.Rd | 76 man/cdmDoc.Rd |only man/cdmFromTables.Rd | 93 man/cdmIndexDoc.Rd |only man/cdmName.Rd | 93 man/cdmNameDoc.Rd |only man/cdmOrTableDoc.Rd |only man/cdmReference.Rd | 82 man/cdmSelect.Rd | 54 man/cdmSource.Rd | 88 man/cdmSourceType.Rd | 84 man/cdmTableDoc.Rd |only man/cdmTableFromSource.Rd | 50 man/cdmVersion.Rd | 84 man/cdmVersionArgumentDoc.Rd |only man/checkCohortRequirements.Rd | 86 man/cliCallDoc.Rd |only man/codelistDoc.Rd |only man/codelistWithDetailsDoc.Rd |only man/cohortCodelist.Rd | 148 man/cohortColumns.Rd | 54 man/cohortCount.Rd | 102 man/cohortDoc.Rd |only man/cohortTables.Rd | 50 man/cohortValidationChecksDoc.Rd |only man/collect.cdm_reference.Rd | 86 man/collect.cohort_table.Rd | 38 man/combineStrata.Rd | 54 man/compareOmopTableFields.Rd |only man/compute.cdm_table.Rd | 71 man/conceptCdmDoc.Rd |only man/conceptSetExpressionDoc.Rd |only man/createIndexes.Rd | 38 man/createLogFile.Rd | 70 man/createTableIndex.Rd | 38 man/dropSourceTable.Rd | 40 man/dropTable.Rd | 44 man/emptyAchillesTable.Rd | 52 man/emptyCdmReference.Rd | 51 man/emptyCodeSearch.Rd |only man/emptyCodelist.Rd | 36 man/emptyCodelistWithDetails.Rd | 36 man/emptyCohortTable.Rd | 98 man/emptyConceptSetExpression.Rd | 36 man/emptyDoc.Rd |only man/emptyOmopTable.Rd | 84 man/emptySummarisedResult.Rd | 48 man/emptyTableNameDoc.Rd |only man/estimateTypeChoices.Rd | 42 man/existingIndexes.Rd | 40 man/expectedIndexes.Rd | 40 man/exportCodeSearch.Rd |only man/exportCodelist.Rd | 44 man/exportCodelistWithDetails.Rd |only man/exportConceptSetExpression.Rd | 44 man/exportFileDoc.Rd |only man/exportSummarisedResult.Rd | 72 man/figures/lifecycle-deprecated.svg | 42 man/figures/lifecycle-experimental.svg | 42 man/figures/lifecycle-stable.svg | 58 man/figures/lifecycle-superseded.svg | 42 man/filterAdditional.Rd | 96 man/filterGroup.Rd | 96 man/filterResult.Rd |only man/filterSettings.Rd | 102 man/filterStrata.Rd | 96 man/getCohortId.Rd | 40 man/getCohortName.Rd | 40 man/getPersonIdentifier.Rd | 46 man/groupColumns.Rd | 94 man/importCodeSearch.Rd |only man/importCodelist.Rd | 43 man/importCodelistWithDetails.Rd |only man/importConceptSetExpression.Rd | 43 man/importFileDoc.Rd |only man/importSummarisedResult.Rd | 46 man/insertCdmTo.Rd | 42 man/insertFromSource.Rd | 44 man/insertTable.Rd | 100 man/isResultSuppressed.Rd | 80 man/isTableEmpty.Rd | 34 man/listSourceTables.Rd | 34 man/logMessage.Rd | 82 man/newAchillesTable.Rd | 42 man/newCdmReference.Rd | 99 man/newCdmSource.Rd | 38 man/newCdmTable.Rd | 42 man/newCodeSearch.Rd |only man/newCodelist.Rd | 37 man/newCodelistWithDetails.Rd | 39 man/newCohortTable.Rd | 144 man/newConceptSetExpression.Rd | 39 man/newLocalSource.Rd | 42 man/newOmopTable.Rd | 42 man/newReadOnlySource.Rd |only man/newSummarisedResult.Rd | 136 man/numberRecords.Rd | 72 man/numberSubjects.Rd | 72 man/omopCdmVersionDoc.Rd |only man/omopColumns.Rd | 72 man/omopDataFolder.Rd | 52 man/omopTableFields.Rd | 34 man/omopTables.Rd | 50 man/omopgenerics-package.Rd | 72 man/overwriteDoc.Rd |only man/pivotEstimates.Rd | 102 man/print.cdm_reference.Rd | 84 man/print.code_search.Rd |only man/print.codelist.Rd | 50 man/print.codelist_with_details.Rd | 56 man/print.concept_set_expression.Rd | 74 man/readSourceTable.Rd | 39 man/recordCohortAttrition.Rd | 124 man/recursiveDoc.Rd |only man/reexports.Rd | 38 man/resultColumns.Rd | 46 man/resultPackageVersion.Rd | 34 man/resultType.Rd |only man/searchStrategy.Rd |only man/settings.Rd | 34 man/settings.cohort_table.Rd | 106 man/settings.summarised_result.Rd | 96 man/settingsColumns.Rd | 98 man/sourceType.Rd | 34 man/splitAdditional.Rd | 106 man/splitAll.Rd | 110 man/splitGroup.Rd | 106 man/splitStrata.Rd | 108 man/statusIndexes.Rd | 42 man/strataColumns.Rd | 94 man/sub-sub-.cdm_reference.Rd | 86 man/sub-subset-.cdm_reference.Rd | 42 man/summariseLogFile.Rd | 84 man/summarisedResultDoc.Rd |only man/summary.cdm_reference.Rd | 82 man/summary.cdm_source.Rd | 46 man/summary.cohort_table.Rd | 92 man/summary.summarised_result.Rd | 86 man/suppress.Rd | 38 man/suppress.summarised_result.Rd | 120 man/tableName.Rd | 82 man/tableSource.Rd | 82 man/tidy.summarised_result.Rd | 106 man/tidyColumns.Rd | 96 man/tmpPrefix.Rd | 40 man/toSnakeCase.Rd | 46 man/transformToSummarisedResult.Rd | 108 man/uniqueId.Rd | 46 man/uniqueTableName.Rd | 42 man/uniteAdditional.Rd | 80 man/uniteGroup.Rd | 70 man/uniteStrata.Rd | 70 man/unusedDotsDoc.Rd |only man/validateAchillesTable.Rd | 63 man/validateAgeGroupArgument.Rd | 95 man/validateCdmArgument.Rd | 139 man/validateCdmTable.Rd | 53 man/validateCohortArgument.Rd | 163 man/validateCohortIdArgument.Rd | 137 man/validateColumn.Rd | 92 man/validateConceptSetArgument.Rd | 86 man/validateNameArgument.Rd | 89 man/validateNameLevel.Rd | 62 man/validateNameStyle.Rd | 105 man/validateNewColumn.Rd | 76 man/validateOmopTable.Rd | 63 man/validateResultArgument.Rd | 123 man/validateStrataArgument.Rd | 71 man/validateWindowArgument.Rd | 74 man/validationDoc.Rd |only tests/testthat.R | 24 tests/testthat/_snaps/utilities.md | 46 tests/testthat/setup.R | 360 tests/testthat/test-addSettings.R | 104 tests/testthat/test-assert.R | 768 +- tests/testthat/test-casting.R | 60 tests/testthat/test-cdmFromTables.R | 346 tests/testthat/test-cdmSelect.R | 20 tests/testthat/test-classCdmReference.R | 193 tests/testthat/test-classCdmSource.R | 120 tests/testthat/test-classCodeSearch.R |only tests/testthat/test-classCodelist.R | 206 tests/testthat/test-classCodelistWithDetails.R | 208 tests/testthat/test-classCohortTable.R | 1142 +-- tests/testthat/test-classConceptSetExpression.R | 382 - tests/testthat/test-classLocalSource.R | 14 tests/testthat/test-classReadOnly.R |only tests/testthat/test-classSummarisedResult.R | 993 +- tests/testthat/test-cohortCodelist.R | 418 - tests/testthat/test-columns.R | 148 tests/testthat/test-combineStrata.R | 54 tests/testthat/test-emptyObjects.R | 140 tests/testthat/test-exportCodelist.R | 104 tests/testthat/test-exportCodelistWithDetails.R |only tests/testthat/test-exportConceptSetExpression.R | 132 tests/testthat/test-exportSummarisedResult.R | 208 tests/testthat/test-filter.R | 434 - tests/testthat/test-importCodelist.R | 236 tests/testthat/test-importCodelistWithDetails.R |only tests/testthat/test-importConceptSetExpression.R | 382 - tests/testthat/test-importSummarisedResult.R | 321 tests/testthat/test-indexes.R |only tests/testthat/test-logger.R | 138 tests/testthat/test-methodBind.R | 564 - tests/testthat/test-methodCdmDisconnect.R | 36 tests/testthat/test-methodComputeTable.R | 56 tests/testthat/test-methodDropSourceTable.R | 234 tests/testthat/test-methodGetCdmSource.R | 6 tests/testthat/test-methodInsertFromSource.R | 38 tests/testthat/test-methodInsertTable.R | 34 tests/testthat/test-methodListSourceTables.R | 13 tests/testthat/test-methodReadSourceTable.R | 147 tests/testthat/test-methodSummary.R | 256 tests/testthat/test-methodSuppress.R | 510 - tests/testthat/test-methodTidy.R | 156 tests/testthat/test-omopDataFolder.R | 18 tests/testthat/test-overwriteClasses.R | 162 tests/testthat/test-pivot.R | 52 tests/testthat/test-prefix.R | 60 tests/testthat/test-recordCohortAttrition.R | 388 - tests/testthat/test-split.R | 297 tests/testthat/test-unite.R | 169 tests/testthat/test-utilities.R | 592 - tests/testthat/test-validate.R | 1030 +- vignettes/cdm_reference.Rmd | 200 vignettes/codelists.Rmd | 207 vignettes/cohorts.Rmd | 444 - vignettes/expanding_omopgenerics.Rmd | 598 - vignettes/logging.Rmd | 276 vignettes/reexport.Rmd | 202 vignettes/summarised_result.Rmd | 898 +- vignettes/suppression.Rmd | 190 356 files changed, 41637 insertions(+), 39167 deletions(-)
Title: Methods for Visualization of Computer Experiments Design and
Surrogate
Description: View 2D/3D sections, contour plots, mesh of excursion sets for computer experiments designs, surrogates or test functions.
Author: Yann Richet [aut, cre] ,
Yves Deville [aut],
Clement Chevalier [ctb]
Maintainer: Yann Richet <yann.richet@asnr.fr>
Diff between DiceView versions 3.2 dated 2026-05-19 and 4.0 dated 2026-06-17
DESCRIPTION | 13 +++++++------ MD5 | 31 +++++++++++++++++-------------- NAMESPACE | 9 +++++++++ R/Utils.R | 41 +++++++++++++++++++++++++++++++++-------- R/function.R | 4 ++-- R/mesh_set.R | 2 +- R/optim.R | 6 +++--- R/parview.R |only R/root.R | 4 ++-- man/Apply.function.Rd | 9 +-------- man/Vectorize.function.Rd | 8 +------- man/contourview.Rd | 2 -- man/filledcontourview.Rd | 2 -- man/parview.Rd |only man/roots.Rd | 2 +- man/safe_mclapply.Rd |only man/sectionview.Rd | 4 ---- man/sectionview3d.Rd | 2 -- 18 files changed, 77 insertions(+), 62 deletions(-)
Title: Necessary Condition Analysis
Description: Performs a Necessary Condition Analysis (NCA). (Dul, J. 2016. Necessary Condition Analysis (NCA). ''Logic and Methodology of 'Necessary but not Sufficient' causality." Organizational Research Methods 19(1), 10-52) <doi:10.1177/1094428115584005>.
NCA identifies necessary (but not sufficient) conditions in datasets, where x causes (e.g. precedes) y. Instead of drawing a regression line ''through the middle of the data'' in an xy-plot, NCA draws the ceiling line. The ceiling line y = f(x) separates the area with observations from the area without observations.
(Nearly) all observations are below the ceiling line: y <= f(x). The empty zone is in the upper left hand corner of the xy-plot (with the convention that the x-axis is ''horizontal'' and the y-axis is ''vertical'' and that values increase ''upwards'' and ''to the right''). The ceiling line is a (piecewise) linear non-decreasing line: a linear step function or a straight line. It indicates which level of x (e.g., an effort, [...truncated...]
Author: Jan Dul [aut],
Govert Buijs [cre]
Maintainer: Govert Buijs <buijs@rsm.nl>
Diff between NCA versions 5.0.1 dated 2026-04-28 and 5.0.2 dated 2026-06-17
DESCRIPTION | 8 +++---- MD5 | 26 +++++++++++----------- NEWS.md | 11 +++++++++ R/nca_difference.R | 57 ++++++++++++++++++++++++++++++-------------------- R/nca_normalize.R | 12 +++++++--- R/nca_plots.R | 2 - R/nca_power.R | 6 ++--- R/p_purity_helpers.R | 10 +++++--- R/p_purity_sql.R | 4 +-- R/p_scope.R | 8 +++---- R/p_utils.R | 18 ++++++++++++--- build/partial.rdb |binary man/NCA-package.Rd | 4 +-- man/nca_difference.Rd | 32 ++++++++++++++++++++-------- 14 files changed, 126 insertions(+), 72 deletions(-)
Title: Administrative Boundaries and Static Map Tiles for Spain
Description: Administrative boundaries of Spain at several levels
(Autonomous Communities and Cities, provinces, municipalities and
'NUTS'), based on 'GISCO' from 'Eurostat'
<https://ec.europa.eu/eurostat/web/gisco> and 'CartoBase ANE' from
'Instituto Geográfico Nacional' <https://www.ign.es/>. Includes tools
to download and process static map tiles and a 'leaflet' plugin for
Spanish public administration tile providers.
Author: Diego Hernangomez [aut, cre, cph] ,
Eurostat [cph] ,
Instituto Geografico Nacional [cph] ,
Francisco J. Goerlich [ctb]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between mapSpain versions 1.1.0 dated 2026-03-26 and 1.2.0 dated 2026-06-17
DESCRIPTION | 37 MD5 | 363 +++--- NAMESPACE | 106 - NEWS.md | 271 ++-- R/addProviderEspTiles.R | 344 +++--- R/data.R | 494 ++++----- R/esp-cache.R | 721 ++++++------- R/esp-check-access.R | 146 -- R/esp-dict.R | 655 ++++++------ R/esp-get-attributions.R | 48 R/esp-get-can-box.R | 359 +++--- R/esp-get-capimun.R | 303 ++--- R/esp-get-ccaa-siane.R | 358 +++--- R/esp-get-ccaa.R | 276 ++--- R/esp-get-comarca.R | 124 -- R/esp-get-countries-siane.R | 194 +-- R/esp-get-grid-BDN.R | 90 - R/esp-get-grid-EEA.R | 86 - R/esp-get-grid-ESDAC.R | 162 +- R/esp-get-grid-MTN.R | 270 ++-- R/esp-get-gridmap.R | 58 - R/esp-get-hydrobasin.R | 230 +--- R/esp-get-hypsobath.R | 294 ++--- R/esp-get-landwater.R | 596 ++++------ R/esp-get-munic-siane.R | 336 ++---- R/esp-get-munic.R | 423 +++---- R/esp-get-nuts.R | 435 ++++---- R/esp-get-prov-siane.R | 277 +---- R/esp-get-prov.R | 285 ++--- R/esp-get-railway.R | 272 ++--- R/esp-get-roads.R | 232 +--- R/esp-get-simpl.R | 292 ++--- R/esp-get-spain-siane.R | 120 +- R/esp-get-spain.R | 163 +-- R/esp-get-stations.R | 77 - R/esp-get-tiles.R | 1050 ++++++++++--------- R/esp-make-provider.R | 227 ++-- R/esp-move-can.R | 312 ++--- R/esp-siane-bulk-download.R | 158 +- R/mapSpain-package.R | 17 R/sysdata.rda |binary R/utils-convert-names.R | 672 +++++------- R/utils-country.R | 15 R/utils-dict.R | 371 ++++-- R/utils-get-tiles.R | 439 +++----- R/utils-sf.R | 486 +++++--- R/utils-slippy.R | 184 +-- R/utils-url.R | 325 ++--- R/utils.R | 207 ++- README.md | 96 - build/partial.rdb |binary build/vignette.rds |binary data/esp_codelist.rda |binary data/esp_nuts_2024.rda |binary data/esp_tiles_providers.rda |binary data/pobmun25.rda |binary inst/CITATION | 34 inst/COPYRIGHTS | 156 +- inst/WORDLIST | 59 - inst/doc/imagery.html | 15 inst/doc/imagery.qmd | 10 inst/doc/mapSpain.html | 165 +-- inst/doc/mapSpain.qmd | 144 +- inst/schemaorg.json | 10 man/addProviderEspTiles.Rd | 146 +- man/esp_check_access.Rd | 2 man/esp_clear_cache.Rd | 118 +- man/esp_codelist.Rd | 210 ++- man/esp_dict.Rd | 188 +-- man/esp_get_can_box.Rd | 226 ++-- man/esp_get_capimun.Rd | 358 +++--- man/esp_get_ccaa.Rd | 326 +++--- man/esp_get_ccaa_siane.Rd | 302 ++--- man/esp_get_comarca.Rd | 305 ++--- man/esp_get_countries_siane.Rd | 236 ++-- man/esp_get_grid_BDN.Rd | 214 +-- man/esp_get_grid_EEA.Rd | 91 - man/esp_get_grid_ESDAC.Rd | 135 +- man/esp_get_grid_MTN.Rd | 246 ++-- man/esp_get_gridmap.Rd | 221 ++-- man/esp_get_hydrobasin.Rd | 234 ++-- man/esp_get_hypsobath.Rd | 306 ++--- man/esp_get_landwater.Rd | 303 ++--- man/esp_get_munic.Rd | 357 +++--- man/esp_get_munic_siane.Rd | 382 +++---- man/esp_get_nuts.Rd | 413 +++---- man/esp_get_prov.Rd | 324 ++--- man/esp_get_prov_siane.Rd | 286 ++--- man/esp_get_railway.Rd | 246 ++-- man/esp_get_roads.Rd | 204 +-- man/esp_get_simpl.Rd | 209 +-- man/esp_get_spain.Rd | 242 ++-- man/esp_get_spain_siane.Rd | 246 ++-- man/esp_get_tiles.Rd | 375 +++--- man/esp_make_provider.Rd | 139 +- man/esp_move_can.Rd | 160 +- man/esp_nuts_2024.Rd | 156 +- man/esp_set_cache_dir.Rd | 220 ++-- man/esp_siane_bulk_download.Rd | 200 +-- man/esp_tiles_providers.Rd | 311 ++--- man/figures/README-tile-1.png |binary man/figures/lifecycle-deprecated.svg | 42 man/figures/lifecycle-experimental.svg | 42 man/figures/lifecycle-stable.svg | 58 - man/figures/lifecycle-superseded.svg | 42 man/mapSpain-package.Rd | 72 - man/pobmun25.Rd | 78 - man/roxygen/meta.R | 31 tests/testthat.R | 8 tests/testthat/_snaps/addProviderEspTiles.md | 2 tests/testthat/_snaps/esp-cache.md | 4 tests/testthat/_snaps/esp-dict.md | 12 tests/testthat/_snaps/esp-get-can-box.md | 6 tests/testthat/_snaps/esp-get-capimun.md | 2 tests/testthat/_snaps/esp-get-ccaa-siane.md | 4 tests/testthat/_snaps/esp-get-ccaa.md | 8 tests/testthat/_snaps/esp-get-comarca.md | 2 tests/testthat/_snaps/esp-get-countries-siane.md | 2 tests/testthat/_snaps/esp-get-grid-BDN.md | 8 tests/testthat/_snaps/esp-get-grid-EEA.md | 2 tests/testthat/_snaps/esp-get-gridmap.md | 2 tests/testthat/_snaps/esp-get-hydrobasin.md | 4 tests/testthat/_snaps/esp-get-landwater.md | 2 tests/testthat/_snaps/esp-get-munic-siane.md | 2 tests/testthat/_snaps/esp-get-munic.md | 2 tests/testthat/_snaps/esp-get-nuts.md | 16 tests/testthat/_snaps/esp-get-railway.md | 2 tests/testthat/_snaps/esp-get-simpl.md | 2 tests/testthat/_snaps/esp-get-tiles.md | 8 tests/testthat/_snaps/esp-move-can.md | 4 tests/testthat/_snaps/utils-convert-names.md | 10 tests/testthat/_snaps/utils-country.md | 10 tests/testthat/_snaps/utils-get-tiles.md | 2 tests/testthat/_snaps/utils-sf.md | 4 tests/testthat/_snaps/utils-url.md | 4 tests/testthat/_snaps/utils.md | 24 tests/testthat/helpers.R |only tests/testthat/test-addProviderEspTiles.R | 50 tests/testthat/test-esp-cache.R | 389 +++---- tests/testthat/test-esp-check-access.R | 44 tests/testthat/test-esp-dict.R | 184 +-- tests/testthat/test-esp-get-attributions.R | 42 tests/testthat/test-esp-get-can-box.R | 32 tests/testthat/test-esp-get-capimun.R | 294 ++--- tests/testthat/test-esp-get-ccaa-siane.R | 332 ++---- tests/testthat/test-esp-get-ccaa.R | 142 +- tests/testthat/test-esp-get-comarca.R | 201 +-- tests/testthat/test-esp-get-countries-siane.R | 247 ++-- tests/testthat/test-esp-get-grid-BDN.R | 206 +-- tests/testthat/test-esp-get-grid-EEA.R | 8 tests/testthat/test-esp-get-grid-ESDAC.R | 107 - tests/testthat/test-esp-get-grid-MTN.R | 104 - tests/testthat/test-esp-get-gridmap.R | 144 +- tests/testthat/test-esp-get-hydrobasin.R | 253 ++-- tests/testthat/test-esp-get-hypsobath.R | 225 +--- tests/testthat/test-esp-get-landwater.R | 440 +++----- tests/testthat/test-esp-get-munic-siane.R | 303 ++--- tests/testthat/test-esp-get-munic.R | 236 ++-- tests/testthat/test-esp-get-nuts.R | 526 ++++----- tests/testthat/test-esp-get-prov-siane.R | 353 +++--- tests/testthat/test-esp-get-prov.R | 162 +- tests/testthat/test-esp-get-railway.R | 213 +-- tests/testthat/test-esp-get-roads.R | 209 +-- tests/testthat/test-esp-get-simpl.R | 190 +-- tests/testthat/test-esp-get-spain-siane.R | 141 +- tests/testthat/test-esp-get-spain.R | 114 +- tests/testthat/test-esp-get-stations.R | 160 +- tests/testthat/test-esp-get-tiles.R | 1248 +++++++++++------------ tests/testthat/test-esp-make-provider.R | 110 +- tests/testthat/test-esp-move-can.R | 408 +++---- tests/testthat/test-esp-siane-bulk-download.R | 105 - tests/testthat/test-utils-convert-names.R | 489 ++++----- tests/testthat/test-utils-country.R | 100 - tests/testthat/test-utils-dict.R | 154 +- tests/testthat/test-utils-get-tiles.R | 576 +++++----- tests/testthat/test-utils-sf.R | 209 +-- tests/testthat/test-utils-url.R | 425 +++---- tests/testthat/test-utils.R | 386 +++---- vignettes/basic2-1.png |binary vignettes/basic3-1.png |binary vignettes/giscoR-1.png |binary vignettes/imagery.qmd | 10 vignettes/mapSpain.qmd | 144 +- 183 files changed, 16776 insertions(+), 17448 deletions(-)
Title: Conditional Mutual Information Estimation for Multi-Omics Data
Description: The biases introduced in association measures, particularly mutual information,
are influenced by factors such as tumor purity, mutation burden, and hypermethylation.
This package provides the estimation of conditional mutual information (CMI) and its
statistical significance with a focus on its application to multi-omics data. Utilizing
B-spline functions (inspired by Daub et al. (2004) <doi:10.1186/1471-2105-5-118>), the package offers tools to estimate the association between heterogeneous multi-
omics data, while removing the effects of confounding factors. This helps to unravel complex
biological interactions. In addition, it includes methods to evaluate the statistical significance
of these associations, providing a robust framework for multi-omics data integration and
analysis. This package is ideal for researchers in computational biology, bioinformatics,
and systems biology seeking a comprehensive tool for understanding interdependencies in
omics data.
Author: Gaojianyong Wang [aut, cre]
Maintainer: Gaojianyong Wang <gjywang@gmail.com>
Diff between conMItion versions 0.3.1 dated 2026-05-26 and 0.4.0 dated 2026-06-17
DESCRIPTION | 6 MD5 | 14 - R/ComputePermutation.R | 282 +++++++++++++++++++++++++++---- man/CMIBiCondimat2matPermu.Rd | 5 man/CMIBiCondimat2vecPermu.Rd | 5 man/CMImat2matPermu.Rd | 7 man/CMImat2vecPermu.Rd | 5 man/permute_within_bins.Rd |only man/permute_within_two_condition_bins.Rd |only 9 files changed, 282 insertions(+), 42 deletions(-)
Title: Generate Citation File Format ('CFF') Metadata for R Packages
Description: Citation File Format ('CFF') version 1.2.0
<doi:10.5281/zenodo.5171937> is a human- and machine-readable file
format for software citation metadata. Core utilities generate, read,
write and validate Citation File Format metadata for R packages.
Author: Diego Hernangomez [aut, cre, cph] ,
Joao Martins [rev] ,
Scott Chamberlain [rev]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between cffr versions 1.4.0 dated 2026-05-04 and 1.4.1 dated 2026-06-17
cffr-1.4.0/cffr/tests/testthat/_snaps/mock-package.md |only cffr-1.4.1/cffr/DESCRIPTION | 18 cffr-1.4.1/cffr/MD5 | 370 cffr-1.4.1/cffr/NAMESPACE | 176 cffr-1.4.1/cffr/NEWS.md | 246 cffr-1.4.1/cffr/R/as_bibentry.R | 213 cffr-1.4.1/cffr/R/as_cff.R | 97 cffr-1.4.1/cffr/R/as_cff_person.R | 191 cffr-1.4.1/cffr/R/as_cff_reference.R | 39 cffr-1.4.1/cffr/R/assertions.R | 166 cffr-1.4.1/cffr/R/cff.R | 194 cffr-1.4.1/cffr/R/cff_create.R | 206 cffr-1.4.1/cffr/R/cff_gha_update.R | 152 cffr-1.4.1/cffr/R/cff_git_hook.R | 211 cffr-1.4.1/cffr/R/cff_modify.R | 234 cffr-1.4.1/cffr/R/cff_read.R | 140 cffr-1.4.1/cffr/R/cff_read_bib_text.R | 188 cffr-1.4.1/cffr/R/cff_validate.R | 299 cffr-1.4.1/cffr/R/cff_write.R | 381 - cffr-1.4.1/cffr/R/cff_write_misc.R | 285 cffr-1.4.1/cffr/R/data.R | 18 cffr-1.4.1/cffr/R/deprecated.R | 629 - cffr-1.4.1/cffr/R/docs.R | 44 cffr-1.4.1/cffr/R/encoded_utf_to_latex.R | 112 cffr-1.4.1/cffr/R/methods.R | 733 - cffr-1.4.1/cffr/R/utils-alerts.R | 176 cffr-1.4.1/cffr/R/utils-bib.R | 114 cffr-1.4.1/cffr/R/utils-cff_read.R | 238 cffr-1.4.1/cffr/R/utils-cff_ref.R | 154 cffr-1.4.1/cffr/R/utils-create.R | 250 cffr-1.4.1/cffr/R/utils-methods.R | 126 cffr-1.4.1/cffr/R/utils-persons.R | 403 - cffr-1.4.1/cffr/R/utils-schema.R | 601 - cffr-1.4.1/cffr/R/utils.R | 91 cffr-1.4.1/cffr/R/zzz.R | 26 cffr-1.4.1/cffr/README.md | 174 cffr-1.4.1/cffr/inst/CITATION | 134 cffr-1.4.1/cffr/inst/REFERENCES.bib | 499 - cffr-1.4.1/cffr/inst/WORDLIST | 6 cffr-1.4.1/cffr/inst/bash/citation-cff-pre-commit.sh | 72 cffr-1.4.1/cffr/inst/doc/bibtex-cff.R | 69 cffr-1.4.1/cffr/inst/doc/bibtex-cff.html | 178 cffr-1.4.1/cffr/inst/doc/bibtex-cff.qmd | 294 cffr-1.4.1/cffr/inst/doc/cffr.R | 26 cffr-1.4.1/cffr/inst/doc/cffr.html | 82 cffr-1.4.1/cffr/inst/doc/cffr.qmd | 81 cffr-1.4.1/cffr/inst/doc/joss-paper.html | 22 cffr-1.4.1/cffr/inst/doc/joss-paper.qmd | 61 cffr-1.4.1/cffr/inst/doc/r-cff.R | 70 cffr-1.4.1/cffr/inst/doc/r-cff.html | 120 cffr-1.4.1/cffr/inst/doc/r-cff.qmd | 146 cffr-1.4.1/cffr/inst/examples/CITATION_auto | 50 cffr-1.4.1/cffr/inst/examples/CITATION_basic | 46 cffr-1.4.1/cffr/inst/examples/CITATION_basic.cff | 48 cffr-1.4.1/cffr/inst/examples/CITATION_dx_doi | 28 cffr-1.4.1/cffr/inst/examples/CITATION_error.cff | 38 cffr-1.4.1/cffr/inst/examples/CITATION_rmarkdown | 100 cffr-1.4.1/cffr/inst/examples/CITATION_skeleton.cff | 16 cffr-1.4.1/cffr/inst/examples/CITATION_surveillance | 56 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_basic | 32 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_basic_plain_authors | 26 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_basicdate | 34 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_bioconductor | 134 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_codeberg | 84 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_gitlab | 156 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_many_persons | 84 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_many_urls | 38 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_no_URL | 152 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_no_encoding | 34 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_posit_package_manager | 62 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_r_universe | 216 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_rgeos | 86 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_surveillance | 212 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_two_emails | 74 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_twomaintainers | 106 cffr-1.4.1/cffr/inst/examples/DESCRIPTION_wrong_urls | 70 cffr-1.4.1/cffr/inst/examples/example.bib | 52 cffr-1.4.1/cffr/inst/examples/preferred-citation-book-missing.cff | 34 cffr-1.4.1/cffr/inst/examples/preferred-citation-book.cff | 40 cffr-1.4.1/cffr/inst/examples/preferred-citation-conference-paper-2.cff | 74 cffr-1.4.1/cffr/inst/examples/preferred-citation-conference-paper-missing.cff | 56 cffr-1.4.1/cffr/inst/examples/preferred-citation-conference-paper.cff | 94 cffr-1.4.1/cffr/inst/examples/preferred-citation-manual.cff | 82 cffr-1.4.1/cffr/inst/examples/preferred-citation-no-month.cff | 28 cffr-1.4.1/cffr/inst/examples/preferred-citation-no-vol.cff | 60 cffr-1.4.1/cffr/inst/examples/preferred-citation-pamphlet.cff | 58 cffr-1.4.1/cffr/inst/examples/preferred-citation-report-no-affiliation.cff | 58 cffr-1.4.1/cffr/inst/examples/preferred-citation-report-no-institution.cff | 60 cffr-1.4.1/cffr/inst/examples/preferred-citation-report.cff | 64 cffr-1.4.1/cffr/inst/examples/preferred-citation-unpublished.cff | 60 cffr-1.4.1/cffr/inst/examples/reprozip.cff | 282 cffr-1.4.1/cffr/inst/examples/smith-et-al.cff | 58 cffr-1.4.1/cffr/inst/examples/tidyverse-joss-paper.cff | 58 cffr-1.4.1/cffr/inst/examples/tidyverse-software.cff | 28 cffr-1.4.1/cffr/inst/extdata/SPDX_License_List.csv | 740 - cffr-1.4.1/cffr/inst/extdata/cran_licenses.csv | 312 cffr-1.4.1/cffr/inst/schema/schema.json | 3764 +++++----- cffr-1.4.1/cffr/inst/schemaorg.json | 6 cffr-1.4.1/cffr/inst/yaml/update-citation-cff.yaml | 120 cffr-1.4.1/cffr/man/as_bibentry.Rd | 73 cffr-1.4.1/cffr/man/as_cff.Rd | 36 cffr-1.4.1/cffr/man/as_cff_person.Rd | 67 cffr-1.4.1/cffr/man/cff.Rd | 15 cffr-1.4.1/cffr/man/cff_class.Rd | 113 cffr-1.4.1/cffr/man/cff_create.Rd | 58 cffr-1.4.1/cffr/man/cff_gha_update.Rd | 16 cffr-1.4.1/cffr/man/cff_git_hook.Rd | 10 cffr-1.4.1/cffr/man/cff_modify.Rd | 11 cffr-1.4.1/cffr/man/cff_read.Rd | 42 cffr-1.4.1/cffr/man/cff_read_bib_text.Rd | 7 cffr-1.4.1/cffr/man/cff_schema.Rd | 20 cffr-1.4.1/cffr/man/cff_validate.Rd | 30 cffr-1.4.1/cffr/man/cff_write.Rd | 44 cffr-1.4.1/cffr/man/cff_write_misc.Rd | 44 cffr-1.4.1/cffr/man/cffr-package.Rd | 4 cffr-1.4.1/cffr/man/chunks/cffclass.Rmd | 80 cffr-1.4.1/cffr/man/chunks/person.Rmd | 4 cffr-1.4.1/cffr/man/cran_to_spdx.Rd | 63 cffr-1.4.1/cffr/man/deprecated_cff_bibentry.Rd | 12 cffr-1.4.1/cffr/man/deprecated_cff_from_bib.Rd | 12 cffr-1.4.1/cffr/man/deprecated_cff_person.Rd | 19 cffr-1.4.1/cffr/man/deprecated_cff_to_bib.Rd | 35 cffr-1.4.1/cffr/man/deprecated_write.Rd | 15 cffr-1.4.1/cffr/man/encoded_utf_to_latex.Rd | 10 cffr-1.4.1/cffr/man/figures/lifecycle-archived.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-defunct.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-deprecated.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-experimental.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-maturing.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-questioning.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-soft-deprecated.svg | 42 cffr-1.4.1/cffr/man/figures/lifecycle-stable.svg | 58 cffr-1.4.1/cffr/man/figures/lifecycle-superseded.svg | 42 cffr-1.4.1/cffr/man/roxygen/meta.R | 25 cffr-1.4.1/cffr/tests/testthat.R | 24 cffr-1.4.1/cffr/tests/testthat/_snaps/as_bibentry.md | 8 cffr-1.4.1/cffr/tests/testthat/_snaps/as_cff.md | 2 cffr-1.4.1/cffr/tests/testthat/_snaps/cff.md | 18 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_gha_update.md | 8 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_modify.md | 12 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_read.md | 14 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_read_bib_text.md | 8 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_validate.md | 8 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write.md | 136 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/appendkeys.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/asci_trans.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/basic.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/fix_extension.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/new_folder.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/newkeys.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/noencoding.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write/utf8.cff | 6 cffr-1.4.1/cffr/tests/testthat/_snaps/cff_write_misc.md | 4 cffr-1.4.1/cffr/tests/testthat/_snaps/methods.md | 8 cffr-1.4.1/cffr/tests/testthat/_snaps/utils-alerts.md | 10 cffr-1.4.1/cffr/tests/testthat/_snaps/xtra-check-bibtex-ruby.md | 4 cffr-1.4.1/cffr/tests/testthat/setup-available-packages.R |only cffr-1.4.1/cffr/tests/testthat/test-as_bibentry.R | 294 cffr-1.4.1/cffr/tests/testthat/test-as_cff.R | 50 cffr-1.4.1/cffr/tests/testthat/test-as_cff_person.R | 25 cffr-1.4.1/cffr/tests/testthat/test-as_cff_reference.R | 25 cffr-1.4.1/cffr/tests/testthat/test-assertions.R | 227 cffr-1.4.1/cffr/tests/testthat/test-cff.R | 232 cffr-1.4.1/cffr/tests/testthat/test-cff_create.R | 147 cffr-1.4.1/cffr/tests/testthat/test-cff_gha_update.R | 80 cffr-1.4.1/cffr/tests/testthat/test-cff_modify.R | 78 cffr-1.4.1/cffr/tests/testthat/test-cff_read.R | 656 + cffr-1.4.1/cffr/tests/testthat/test-cff_read_bib_text.R | 86 cffr-1.4.1/cffr/tests/testthat/test-cff_validate.R | 7 cffr-1.4.1/cffr/tests/testthat/test-cff_write.R | 563 - cffr-1.4.1/cffr/tests/testthat/test-cff_write_misc.R | 272 cffr-1.4.1/cffr/tests/testthat/test-deprecated.R | 154 cffr-1.4.1/cffr/tests/testthat/test-methods.R | 38 cffr-1.4.1/cffr/tests/testthat/test-mock-package.R | 133 cffr-1.4.1/cffr/tests/testthat/test-utils-alerts.R | 108 cffr-1.4.1/cffr/tests/testthat/test-utils-bib.R | 16 cffr-1.4.1/cffr/tests/testthat/test-utils-cff_create.R | 44 cffr-1.4.1/cffr/tests/testthat/test-utils-create.R | 39 cffr-1.4.1/cffr/tests/testthat/test-utils-persons.R | 356 cffr-1.4.1/cffr/tests/testthat/test-utils-schema.R | 38 cffr-1.4.1/cffr/tests/testthat/test-utils.R | 81 cffr-1.4.1/cffr/tests/testthat/test-xtra-check-bibtex-ruby.R | 252 cffr-1.4.1/cffr/vignettes/REFERENCES.bib | 524 - cffr-1.4.1/cffr/vignettes/bibtex-cff.qmd | 294 cffr-1.4.1/cffr/vignettes/cffr.qmd | 81 cffr-1.4.1/cffr/vignettes/joss-paper.qmd | 61 cffr-1.4.1/cffr/vignettes/r-cff.qmd | 146 187 files changed, 12207 insertions(+), 12196 deletions(-)