Title: Extended Vasicek Credit Loss Model with Macroeconomic Factors
Description: Fits the extended Vasicek single-factor credit loss model where
the probability of default depends on macroeconomic covariates. Maximum
likelihood estimates of all parameters, including asset value correlation,
are obtained via closed-form probit-transformed OLS regression; see
Mayorov (2026) <doi:10.2139/ssrn.6506378> for derivation.
Author: Dmitriy Mayorov [aut, cre]
Maintainer: Dmitriy Mayorov <cran@dimview.org>
Diff between vasicekfit versions 0.1.0 dated 2026-04-28 and 0.2.0 dated 2026-07-10
DESCRIPTION | 8 +-- MD5 | 25 ++++++----- NEWS.md |only R/distribution.R | 6 +- R/methods.R | 49 ++++++++++++++++------- R/predict.vasicekfit.R | 44 +++++++++++++------- R/vasicekfit.R | 25 +++++++++-- README.md | 7 ++- man/predict.vasicekfit.Rd | 19 ++++++++- man/vasicekfit-methods.Rd | 44 +++++++++++++++++--- man/vasicekfit.Rd | 10 +++- tests/testthat/test-predict.R | 24 +++++++++-- tests/testthat/test-vasicekfit.R | 21 +++++++++ tests/testthat/test-vcov-confint.R | 78 +++++++++++++++++++++++++++++++++++++ 14 files changed, 291 insertions(+), 69 deletions(-)
More information about stepwedgepower at CRAN
Permanent link
Title: Least Squares Sparse Principal Components Analysis
Description: Implements least-squares sparse principal component analysis (LS-SPCA). The approach follows Merola (2015) <doi:10.1111/anzs.12128> and Merola and Chen (2019) <doi:10.1016/j.jmva.2019.04.001>.
Author: Giovanni Maria Merola [aut, cre]
Maintainer: Giovanni Maria Merola <merolagio@gmail.com>
This is a re-admission after prior archival of version 0.6.0 dated 2014-12-16
Diff between spca versions 0.6.0 dated 2014-12-16 and 1.1.1 dated 2026-07-10
spca-0.6.0/spca/R/PCA.R |only spca-0.6.0/spca/R/SPCA_B&B_all_Funcs.R |only spca-0.6.0/spca/R/SPCA_BE.R |only spca-0.6.0/spca/R/SPCA_Corr_And_Uncor_Funcs.R |only spca-0.6.0/spca/R/SPCA_Functions_forcard.R |only spca-0.6.0/spca/R/SPCA_Functions_support.R |only spca-0.6.0/spca/R/SPCA_Methods_For_Class.R |only spca-0.6.0/spca/data/anthrop.RData |only spca-0.6.0/spca/data/bsbl.RData |only spca-0.6.0/spca/data/bsbl_avg.RData |only spca-0.6.0/spca/data/bsbl_labels.RData |only spca-0.6.0/spca/inst/doc/Advanced_Example.R |only spca-0.6.0/spca/inst/doc/Advanced_Example.Rmd |only spca-0.6.0/spca/inst/doc/Advanced_Example.html |only spca-0.6.0/spca/inst/doc/BE_Algorithm.R |only spca-0.6.0/spca/inst/doc/BE_Algorithm.Rmd |only spca-0.6.0/spca/inst/doc/BE_Algorithm.html |only spca-0.6.0/spca/inst/doc/Introduction.R |only spca-0.6.0/spca/inst/doc/Introduction.Rmd |only spca-0.6.0/spca/inst/doc/Introduction.html |only spca-0.6.0/spca/inst/doc/manual.Rmd |only spca-0.6.0/spca/inst/doc/manual.html |only spca-0.6.0/spca/inst/manual.Rnw |only spca-0.6.0/spca/inst/manual.pdf |only spca-0.6.0/spca/man/anthrop.Rd |only spca-0.6.0/spca/man/bsbl.Rd |only spca-0.6.0/spca/man/bsbl_avg.Rd |only spca-0.6.0/spca/man/bsbl_labels.Rd |only spca-0.6.0/spca/man/choosecard.Rd |only spca-0.6.0/spca/man/compare.spca.Rd |only spca-0.6.0/spca/man/showload.Rd |only spca-0.6.0/spca/man/spcabb.Rd |only spca-0.6.0/spca/man/spcabe.Rd |only spca-0.6.0/spca/vignettes/Advanced_Example.Rmd |only spca-0.6.0/spca/vignettes/BE_Algorithm.Rmd |only spca-0.6.0/spca/vignettes/BE_flowchart |only spca-0.6.0/spca/vignettes/Introduction.Rmd |only spca-0.6.0/spca/vignettes/manual.Rmd |only spca-0.6.0/spca/vignettes/spca.bibtex |only spca-1.1.1/spca/DESCRIPTION | 40 +-- spca-1.1.1/spca/MD5 | 172 +++++++++---- spca-1.1.1/spca/NAMESPACE | 77 +++++- spca-1.1.1/spca/NEWS.md |only spca-1.1.1/spca/R/RcppExports.R |only spca-1.1.1/spca/R/compare_spca.R |only spca-1.1.1/spca/R/datasets.R |only spca-1.1.1/spca/R/helpers_and_validation.R |only spca-1.1.1/spca/R/imports.R |only spca-1.1.1/spca/R/pca.R |only spca-1.1.1/spca/R/plot.spca.R |only spca-1.1.1/spca/R/print.spca.R |only spca-1.1.1/spca/R/spca-package.R | 201 ++++++--------- spca-1.1.1/spca/R/spca.R |only spca-1.1.1/spca/R/summary.spca.R |only spca-1.1.1/spca/R/utilities_and_cpp_wrappers.R |only spca-1.1.1/spca/README.md |only spca-1.1.1/spca/build/partial.rdb |only spca-1.1.1/spca/build/vignette.rds |binary spca-1.1.1/spca/data/holzinger.rda |only spca-1.1.1/spca/data/holzinger_scales.rda |only spca-1.1.1/spca/inst/CITATION |only spca-1.1.1/spca/inst/doc/spca_extended_vignette.R |only spca-1.1.1/spca/inst/doc/spca_extended_vignette.Rmd |only spca-1.1.1/spca/inst/doc/spca_extended_vignette.html |only spca-1.1.1/spca/inst/doc/spca_intro.R |only spca-1.1.1/spca/inst/doc/spca_intro.Rmd |only spca-1.1.1/spca/inst/doc/spca_intro.html |only spca-1.1.1/spca/man/aggregate_by_group.Rd |only spca-1.1.1/spca/man/change_loadings_sign_spca.Rd |only spca-1.1.1/spca/man/compare_spca.Rd |only spca-1.1.1/spca/man/figures |only spca-1.1.1/spca/man/holzinger.Rd |only spca-1.1.1/spca/man/holzinger_scales.Rd |only spca-1.1.1/spca/man/is.spca.Rd | 64 +++-- spca-1.1.1/spca/man/new_spca.Rd |only spca-1.1.1/spca/man/pca.Rd | 157 ++++++++---- spca-1.1.1/spca/man/plot.spca.Rd | 239 ++++++++++++------- spca-1.1.1/spca/man/print.spca.Rd | 130 ++++++---- spca-1.1.1/spca/man/show_contributions_spca.Rd |only spca-1.1.1/spca/man/spca-package.Rd | 115 +++++---- spca-1.1.1/spca/man/spca.Rd | 225 ++++++++++++----- spca-1.1.1/spca/man/spca_object.Rd |only spca-1.1.1/spca/man/spca_screeplot.Rd |only spca-1.1.1/spca/man/summary.spca.Rd | 157 +++++++----- spca-1.1.1/spca/man/wachter_qqplot.Rd |only spca-1.1.1/spca/src |only spca-1.1.1/spca/tests |only spca-1.1.1/spca/vignettes/Extended_vignette_material |only spca-1.1.1/spca/vignettes/figures |only spca-1.1.1/spca/vignettes/spca_extended_vignette.Rmd |only spca-1.1.1/spca/vignettes/spca_intro.Rmd |only 91 files changed, 1007 insertions(+), 570 deletions(-)
Title: Harness ArcGIS Data Services
Description: Enables users of 'ArcGIS Enterprise', 'ArcGIS Online', or
'ArcGIS Platform' to read, write, publish, or manage vector and raster
data via ArcGIS location services REST API endpoints
<https://developers.arcgis.com/rest/>.
Author: Josiah Parry [aut, cre] ,
Eli Pousson [ctb] ,
Kenneth Vernon [ctb] ,
Martha Bass [ctb] ,
Antony Barja [ctb]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcgislayers versions 0.6.0 dated 2026-03-04 and 0.6.1 dated 2026-07-10
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NEWS.md | 8 ++++++-- R/add_item.R | 27 +++++++++++++++++++++++++-- R/arc-add-delete.R | 8 +++++--- tests/testthat/_snaps/json-correctness.md |only tests/testthat/test-json-correctness.R |only 7 files changed, 46 insertions(+), 15 deletions(-)
Title: Human 'Connectome' Project Interface
Description: Downloads and reads data from Human 'Connectome' Project
<https://balsa.wustl.edu/> using Amazon Web Services ('AWS')
'S3' buckets.
Author: John Muschelli [aut, cre],
Adi Gherman [ctb]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between neurohcp versions 0.11.0 dated 2025-04-01 and 0.12.0 dated 2026-07-10
DESCRIPTION | 18 ++++++------ MD5 | 52 +++++++++++++++++++----------------- NEWS.md | 5 +++ R/bucketlist.R | 22 +++++++++------ R/download_hcp_dir.R | 3 +- R/download_hcp_file.R | 57 +++++++++++++++++++-------------------- R/get_hcp_file.R | 39 ++++++++++++++------------- R/hcp_aws_url.R | 4 ++ R/hcp_ids.R | 3 +- R/hcp_list_files.R | 67 +++++++++++++++++++++-------------------------- R/make_aws_call.R | 4 ++ R/parse_list_files.R | 2 + R/s3_http.R |only README.md | 31 +++++---------------- inst/doc/hcp.R | 16 +++++------ inst/doc/hcp.Rmd | 5 +-- inst/doc/hcp.html | 34 +++++++++-------------- man/bucketlist.Rd | 14 ++++++++- man/download_hcp_dir.Rd | 2 + man/download_hcp_file.Rd | 2 + man/hcp_aws_url.Rd | 2 + man/hcp_ids.Rd | 2 + man/hcp_list_files.Rd | 8 +++++ man/make_aws_call.Rd | 2 + man/parse_list_files.Rd | 2 + tests |only vignettes/hcp.Rmd | 5 +-- 27 files changed, 213 insertions(+), 188 deletions(-)
Title: Cohort Generation for the OMOP Common Data Model
Description: Generate cohorts and subsets using an Observational
Medical Outcomes Partnership (OMOP) Common Data Model (CDM) Database.
Cohorts are defined using 'CIRCE' (<https://github.com/ohdsi/circe-be>) or
SQL compatible with 'SqlRender' (<https://github.com/OHDSI/SqlRender>).
Author: Anthony Sena [aut, cre],
Jamie Gilbert [aut],
Gowtham Rao [aut],
Freddy Avila Cruz [aut],
Martijn Schuemie [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Anthony Sena <sena@ohdsi.org>
Diff between CohortGenerator versions 1.1.0 dated 2026-03-03 and 1.1.1 dated 2026-07-10
DESCRIPTION | 10 MD5 | 43 +-- NEWS.md | 9 R/RunCohortGeneration.R | 11 R/Subsets.R | 8 inst/doc/CreatingCohortSubsetDefinitions.html | 6 inst/doc/GeneratingCohorts.pdf |binary inst/doc/SamplingCohorts.pdf |binary inst/doc/UsingTemplateCohorts.html | 8 man/CohortGenerator-package.Rd | 1 man/CohortSubsetDefinition.Rd | 292 +++++++++++++------------- man/CohortSubsetOperator.Rd | 140 ++++++------ man/CohortTemplateDefinition.Rd | 251 +++++++++++----------- man/DemographicSubsetOperator.Rd | 222 ++++++++++--------- man/LimitSubsetOperator.Rd | 112 +++++---- man/SubsetCohortWindow.Rd | 106 +++++---- man/SubsetOperator.Rd | 246 +++++++++++---------- man/createCohortSubsetOperator.Rd | 6 man/createDemographicSubsetOperator.Rd | 6 man/createLimitSubsetOperator.Rd | 6 tests/testthat/errorReportSql.txt |only tests/testthat/test-RunCohortGeneration.R | 19 + tests/testthat/test-Subsets.R | 46 ++++ 23 files changed, 859 insertions(+), 689 deletions(-)
More information about CohortGenerator at CRAN
Permanent link
Title: A Collection of ML Tools for Species Detection and
Classification in Camera Trap Images and Videos
Description: Functions required to classify subjects within camera trap field data. The package can handle both images and videos. The authors recommend a two-step approach using Microsoft's 'MegaDector' model and then a second model trained on the classes of interest.
Author: Kyra Swanson [aut, cre] ,
Mathias Tobler [aut]
Maintainer: Kyra Swanson <tswanson@sdzwa.org>
Diff between animl versions 3.3.0 dated 2026-06-16 and 3.3.1 dated 2026-07-10
DESCRIPTION | 6 LICENSE | 2 MD5 | 163 ++--- NAMESPACE | 112 ++-- NEWS.md | 88 +-- R/classification.R | 268 ++++----- R/detection.R | 330 ++++++----- R/export.R | 624 +++++++++++----------- R/file_management.R | 719 +++++++++++++------------- R/install.R | 666 ++++++++++++------------ R/reid.R | 276 ++++----- R/sequence_classification.R | 518 +++++++++--------- R/train.R | 132 ++-- R/video_processing.R | 110 +-- R/visualization.R | 168 +++--- R/zzz.R | 56 +- README.md | 329 +++++------ man/WorkingDirectory.Rd | 48 - man/active_times.Rd | 66 +- man/animl_install.Rd | 44 - man/animl_install_instructions.Rd | 22 man/build_file_manifest.Rd | 92 +-- man/check_animl_py.Rd | 22 man/check_file.Rd | 50 - man/check_python.Rd | 44 - man/classify.Rd | 104 +-- man/compute_batched_distance_matrix.Rd | 66 +- man/compute_distance_matrix.Rd | 48 - man/cosine_distance.Rd | 44 - man/create_pyenv.Rd | 38 - man/delete_pyenv.Rd | 40 - man/detect.Rd | 116 ++-- man/download_model.Rd | 50 - man/euclidean_squared_distance.Rd | 44 - man/export_camptrapdp.Rd | 62 +- man/export_camtrapR.Rd | 96 +-- man/export_coco.Rd | 56 +- man/export_folders.Rd | 96 +-- man/export_megadetector.Rd | 62 +- man/export_timelapse.Rd | 48 - man/export_train_val_test.Rd | 90 +-- man/export_yolo.Rd | 92 +-- man/extract_frames.Rd | 90 +-- man/extract_major_minor.Rd |only man/extract_miew_embeddings.Rd | 74 +- man/get_animals.Rd | 44 - man/get_empty.Rd | 44 - man/get_frame_as_image.Rd | 44 - man/list_models.Rd | 40 - man/load_animl.Rd | 48 - man/load_class_list.Rd | 40 - man/load_classifier.Rd | 74 +- man/load_data.Rd | 44 - man/load_detector.Rd | 56 +- man/load_json.Rd | 44 - man/load_miew.Rd | 44 - man/load_yaml.Rd | 44 - man/parse_detections.Rd | 72 +- man/plot_all_bounding_boxes.Rd | 100 +-- man/plot_box.Rd | 98 +-- man/remove_diagonal.Rd | 40 - man/remove_link.Rd | 48 - man/save_classifier.Rd | 74 +- man/save_data.Rd | 52 - man/save_json.Rd | 52 - man/save_yaml.Rd | 52 - man/sequence_calculation.Rd | 78 +- man/sequence_classification.Rd | 146 ++--- man/single_classification.Rd | 86 +-- man/test_classifier.Rd | 40 - man/train_classifier.Rd | 48 - man/update_animl_py.Rd | 40 - man/update_labels_from_folders.Rd | 52 - tests/testthat.R | 24 tests/testthat/helper-animl.R | 6 tests/testthat/test-classification.R | 140 ++--- tests/testthat/test-detection.R | 164 ++--- tests/testthat/test-export.R | 370 ++++++------- tests/testthat/test-file_management.R | 406 +++++++------- tests/testthat/test-reid.R | 240 ++++---- tests/testthat/test-sequence_classification.R | 160 ++--- tests/testthat/test-split.R | 234 ++++---- tests/testthat/test-visualization.R | 80 +- 83 files changed, 4884 insertions(+), 4855 deletions(-)
Title: An Interface to 'nVenn2'
Description: Creates quasi-proportional Venn diagrams with an arbitrary number of sets.
It is related to the old 'nVennR' package, but the algorithm and use have been reworked.
Author: Victor Quesada [aut, cre, cph]
Maintainer: Victor Quesada <quesadavictor@uniovi.es>
Diff between nVennR2 versions 2.0.1 dated 2026-06-01 and 2.0.2 dated 2026-07-10
DESCRIPTION | 8 MD5 | 20 NEWS.md | 8 R/nVenn2.R | 4 inst/CITATION | 8 inst/doc/nVennR2.R | 4 inst/doc/nVennR2.Rmd | 8 inst/doc/nVennR2.html | 3770 ++++++++++++++++++++----------------------- tests/testthat/Rplots.pdf |only tests/testthat/test-nVenn2.R | 19 vignettes/error.svg |only vignettes/nVennR2.Rmd | 8 12 files changed, 1819 insertions(+), 2038 deletions(-)
Title: Interface for Large Language Model APIs in R
Description: Provides a unified interface to large language models across multiple
providers. Supports text generation, tidy data workflows, structured output
with optional JSON Schema validation, XML-like tag extraction, and embeddings.
Includes chat sessions, consistent error handling, and parallel batch tools.
Author: Ali Sanaei [aut, cre]
Maintainer: Ali Sanaei <sanaei@uchicago.edu>
Diff between LLMR versions 0.8.6 dated 2026-06-17 and 0.8.10 dated 2026-07-10
DESCRIPTION | 14 MD5 | 167 +++++---- NAMESPACE | 12 NEWS.md | 522 +++++------------------------- R/LLMR.R | 109 +++++- R/LLMR_response.R | 22 - R/LLMR_tidy.R | 134 +++++-- R/LLM_parallel_utils.R | 126 ++++++- R/LLM_robust_utils.R | 4 R/audit_log.R | 85 ++++ R/batch_mode.R | 67 ++- R/data.R |only R/hash.R | 40 ++ R/json_mode.R | 89 ++++- R/log_messages.R | 38 +- R/log_read.R | 12 R/personas.R |only R/render_messages.R | 25 + R/replicate.R | 98 +++++ R/response_record.R | 2 R/stream.R | 45 ++ R/tags_mode.R | 35 +- R/tools.R | 27 + R/transcript_messages.R |only R/usage.R | 8 README.md | 2 build/vignette.rds |binary data |only inst/CITATION |only inst/anes-data-prep |only inst/doc/about-schema.Rmd | 2 inst/doc/about-schema.html | 6 inst/doc/chat-basics.html | 2 inst/doc/experiments.html | 2 inst/doc/interactive-calls.html | 2 inst/doc/presidential_embeddings.Rmd | 2 inst/doc/presidential_embeddings.html | 6 inst/doc/quickstart.html | 2 inst/doc/reproducibility-and-cost.Rmd | 6 inst/doc/reproducibility-and-cost.html | 9 inst/doc/tidy-and-structured.html | 2 inst/doc/trolley-dilemma-experiment.Rmd | 10 inst/doc/trolley-dilemma-experiment.html | 24 - man/anes_2024_personas.Rd |only man/call_llm_broadcast.Rd | 2 man/call_llm_par.Rd | 8 man/call_llm_par_structured.Rd | 5 man/call_llm_par_tags.Rd | 5 man/call_llm_stream.Rd | 7 man/call_llm_sweep.Rd | 2 man/disable_structured_output.Rd | 3 man/ensure_alternating_messages.Rd |only man/expand_llm_config.Rd | 2 man/get_batched_embeddings.Rd | 13 man/llm_add_request_hash.Rd |only man/llm_agreement.Rd | 16 man/llm_batch_submit.Rd | 13 man/llm_cross_design.Rd | 2 man/llm_fn.Rd | 15 man/llm_fn_structured.Rd | 6 man/llm_fn_tags.Rd | 5 man/llm_log_enable.Rd | 24 + man/llm_mutate.Rd | 8 man/llm_mutate_structured.Rd | 6 man/llm_mutate_tags.Rd | 6 man/llm_persona_demographic_fields.Rd |only man/llm_persona_dictionary.Rd |only man/llm_persona_overview.Rd |only man/llm_persona_split.Rd |only man/llm_tool_signature.Rd |only man/llm_uuid.Rd |only man/llm_validate_persona_frame.Rd |only man/llm_validate_structured_col.Rd | 4 man/llmr_response.Rd | 22 - man/log_llm_error.Rd | 4 man/transcript_as_messages.Rd |only tests/testthat/test-083-core.R | 25 + tests/testthat/test-083-features.R | 101 +++++ tests/testthat/test-audit-fixes-2.R | 33 + tests/testthat/test-audit-fixes.R | 13 tests/testthat/test-batch_mode.R | 58 +++ tests/testthat/test-call_llm.R | 17 tests/testthat/test-canonical-hash.R | 55 +++ tests/testthat/test-enrichment.R |only tests/testthat/test-json-mode.R | 13 tests/testthat/test-log-read.R | 59 +++ tests/testthat/test-personas.R |only tests/testthat/test-render-messages.R | 25 + tests/testthat/test-transcript-messages.R |only tests/testthat/test-usage.R | 22 + vignettes/about-schema.Rmd | 2 vignettes/presidential_embeddings.Rmd | 2 vignettes/reproducibility-and-cost.Rmd | 6 vignettes/trolley-dilemma-experiment.Rmd | 10 94 files changed, 1610 insertions(+), 767 deletions(-)
Title: Comprehensive Statistical Tools for Agricultural Research
Description: A comprehensive suite of statistical and analytical tools for
agricultural research. Includes complete analysis of variance (ANOVA)
functions for all experimental designs: Completely Randomized Design (CRD),
Randomized Block Design (RBD), Pooled RBD, Split Plot with all variations,
Split-Split Plot, Strip Plot, Latin Square, Factorial, Augmented, and Alpha
Lattice, with proper error terms and comprehensive Standard Error (SE) and
Critical Difference (CD) calculations. Features multiple post-hoc tests:
Least Significant Difference (LSD), Duncan Multiple Range Test (DMRT),
Tukey Honestly Significant Difference (HSD), Student-Newman-Keuls (SNK),
Scheffe, Bonferroni, and Dunnett, along with assumption checking and
publication-ready output. Advanced methods include stability analysis using
Eberhart-Russell regression, Additive Main Effects and Multiplicative
Interaction (AMMI), Finlay-Wilkinson regression, Shukla stability variance,
Wricke ecovalence, Coefficient of Variation (CV), and Cult [...truncated...]
Author: Lalit Kumar Rolaniya [aut, cre] ,
Ram Lal Jat [aut] ,
Monika Punia [aut] ,
Raja Ram Choudhary [aut]
Maintainer: Lalit Kumar Rolaniya <lalitrolaniya@gmail.com>
Diff between aridagri versions 2.0.3 dated 2026-02-24 and 2.0.4 dated 2026-07-10
aridagri-2.0.3/aridagri/man/get_sig_symbol.Rd |only aridagri-2.0.3/aridagri/man/imports.Rd |only aridagri-2.0.4/aridagri/DESCRIPTION | 8 aridagri-2.0.4/aridagri/MD5 | 39 - aridagri-2.0.4/aridagri/NAMESPACE | 2 aridagri-2.0.4/aridagri/NEWS.md |only aridagri-2.0.4/aridagri/R/agronomic_analysis.R | 131 +++-- aridagri-2.0.4/aridagri/R/aridagri-package.R | 184 +++++++ aridagri-2.0.4/aridagri/R/aridagri-spd-core.R |only aridagri-2.0.4/aridagri/R/design_additional.R | 111 ++-- aridagri-2.0.4/aridagri/R/design_basic.R | 33 + aridagri-2.0.4/aridagri/R/design_split_plot.R | 548 +++++----------------- aridagri-2.0.4/aridagri/R/imports.R | 2 aridagri-2.0.4/aridagri/R/posthoc_helpers.R | 180 ++++--- aridagri-2.0.4/aridagri/R/statistical_functions.R | 103 ---- aridagri-2.0.4/aridagri/README.md | 235 ++++++--- aridagri-2.0.4/aridagri/man/arid_plot.Rd | 7 aridagri-2.0.4/aridagri/man/export_results.Rd | 2 aridagri-2.0.4/aridagri/man/figures |only aridagri-2.0.4/aridagri/tests |only 20 files changed, 798 insertions(+), 787 deletions(-)
Title: Working with Rotation Data
Description: Tools for working with rotational data, including
simulation from the most commonly used distributions on SO(3),
methods for different Bayes, mean and median type estimators for
the central orientation of a sample, confidence/credible
regions for the central orientation based on those estimators and
a novel visualization technique for rotation data. Most recently,
functions to identify potentially discordant (outlying) values
have been added. References: Bingham, Melissa A. and Nordman, Dan J. and Vardeman, Steve B. (2009),
Bingham, Melissa A and Vardeman, Stephen B and Nordman, Daniel J (2009),
Bingham, Melissa A and Nordman, Daniel J and Vardeman, Stephen B (2010),
Leon, C.A. and Masse, J.C. and Rivest, L.P. (2006),
Hartley, R and Aftab, K and Trumpf, J. (2011),
Stanfill, Bryan and Genschel, Ulrike and Hofmann, Heike (2013),
Maonton, Jonathan (2004),
Mardia, KV and Jupp, PE (2000, ISBN:9780471953333),
Rancourt, D. and Rivest, L.P. and Asselin, J. (2000),
Chang, Ted and Rivest, Loui [...truncated...]
Author: Bryan Stanfill [aut, cre],
Heike Hofmann [aut],
Ulrike Genschel [aut],
Aymeric Stamm [ctb] ,
Luciano Selzer [ctb]
Maintainer: Bryan Stanfill <bstanfill2003@gmail.com>
Diff between rotations versions 1.6.6 dated 2025-09-28 and 1.6.7 dated 2026-07-10
DESCRIPTION | 10 +-- MD5 | 38 ++++++------- NEWS | 8 ++ R/Q4-class.R | 1 build/vignette.rds |binary inst/CITATION | 4 - inst/REFERENCES.bib | 1 inst/doc/rotations-intro.R | 8 ++ inst/doc/rotations-intro.Rnw | 11 +++- inst/doc/rotations-intro.pdf |binary man/Q4.Rd | 5 - man/SO3.Rd | 4 - man/head.Rd | 30 ++++++---- man/rotations.Rd | 1 man/tail.Rd | 30 ++++++---- src/RcppExports.cpp | 88 ++++++++++++++++---------------- tests/testthat/test_conversions.R | 2 vignettes/RJournal_edited.sty | 6 +- vignettes/rotations-intro.Rnw | 11 +++- vignettes/stanfill-hofmann-genschel.bib | 15 ++--- 20 files changed, 151 insertions(+), 122 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Data
Description: Datasets for 'nlmixr2' and 'rxode2'. 'nlmixr2' is used for fitting and comparing
nonlinear mixed-effects models in differential
equations with flexible dosing information commonly seen in pharmacokinetics
and pharmacodynamics (Almquist, Leander, and Jirstrand 2015
<doi:10.1007/s10928-015-9409-1>). Differential equation solving is
by compiled C code provided in the 'rxode2' package
(Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut, cre] ,
Rik Schoemaker [ctb] ,
Kyle Baron [ctb],
Thierry Wendling [ctb],
Ted Grasella [ctb],
C Weil [ctb],
Yaning Wang [ctb],
R O'Reilly [ctb],
David D'Argenio [ctb],
Rodriguez-Vera [ctb],
D Gaver [ctb],
Yuan Xiong [ctb],
Jan Rohl [...truncated...]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between nlmixr2data versions 2.0.9 dated 2024-01-31 and 2.0.10 dated 2026-07-10
DESCRIPTION | 17 ++++++++++------- MD5 | 49 ++++++++++++++++++++++++++----------------------- R/data_neonatal_wt.R |only data/neonatal_wt.rda |only man/Bolus_1CPT.Rd | 13 +++++++------ man/Bolus_1CPTMM.Rd | 13 +++++++------ man/Bolus_2CPT.Rd | 13 +++++++------ man/Bolus_2CPTMM.Rd | 13 +++++++------ man/Infusion_1CPT.Rd | 13 +++++++------ man/Infusion_1CPTMM.Rd | 13 +++++++------ man/Infusion_2CPT.Rd | 13 +++++++------ man/Infusion_2CPTMM.Rd | 13 +++++++------ man/Oral_1CPT.Rd | 13 +++++++------ man/Oral_1CPTMM.Rd | 13 +++++++------ man/Oral_2CPT.Rd | 13 +++++++------ man/Oral_2CPTMM.Rd | 13 +++++++------ man/Wang2007.Rd | 15 ++++++++------- man/mavoglurant.Rd | 15 ++++++++------- man/neonatal_wt.Rd |only man/nimoData.Rd | 15 ++++++++------- man/nmtest.Rd | 15 ++++++++------- man/pheno_sd.Rd | 15 ++++++++------- man/rats.Rd | 15 ++++++++------- man/theo_md.Rd | 15 ++++++++------- man/theo_sd.Rd | 15 ++++++++------- man/warfarin.Rd | 15 ++++++++------- man/wbcSim.Rd | 15 ++++++++------- 27 files changed, 200 insertions(+), 172 deletions(-)
Title: Cluster Extension for 'mlr3'
Description: Extends the 'mlr3' package with cluster analysis.
Author: Maximilian Muecke [aut, cre] ,
Damir Pulatov [aut],
Michel Lang [aut] ,
Marc Becker [ctb]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between mlr3cluster versions 0.4.0 dated 2026-06-11 and 0.4.1 dated 2026-07-10
DESCRIPTION | 8 MD5 | 147 +++++++++-------- NEWS.md | 22 ++ R/LearnerClustAffinityPropagation.R | 2 R/LearnerClustAgnes.R | 7 R/LearnerClustBICO.R | 22 ++ R/LearnerClustBIRCH.R | 2 R/LearnerClustCLARA.R | 9 + R/LearnerClustCobweb.R | 4 R/LearnerClustDBSCAN.R | 2 R/LearnerClustDBSCANfpc.R | 10 + R/LearnerClustDiana.R | 7 R/LearnerClustEM.R | 2 R/LearnerClustFarthestFirst.R | 2 R/LearnerClustFlexmix.R | 44 +++-- R/LearnerClustGenie.R | 11 + R/LearnerClustHDBSCAN.R | 7 R/LearnerClustHclust.R | 11 - R/LearnerClustKCCA.R | 2 R/LearnerClustKKMeans.R | 54 ++++-- R/LearnerClustKProto.R | 6 R/LearnerClustMclust.R | 2 R/LearnerClustMiniBatchKMeans.R | 2 R/LearnerClustMovMF.R | 9 - R/LearnerClustOPTICS.R | 4 R/LearnerClustPAM.R | 4 R/LearnerClustProtoclust.R | 11 - R/LearnerClustSKMeans.R | 4 R/LearnerClustSOM.R | 9 - R/LearnerClustSTDBSCAN.R | 16 + R/LearnerClustSimpleKMeans.R | 6 R/LearnerClustSpectral.R | 2 R/LearnerClustTclust.R | 1 R/LearnerClustXMeans.R | 4 R/MeasureClustSimple.R | 3 R/PredictionClust.R | 7 R/PredictionDataClust.R | 24 ++ R/helper.R | 6 README.md | 25 ++ build/partial.rdb |binary man/PredictionClust.Rd | 3 man/mlr_learners_clust.SimpleKMeans.Rd | 4 man/mlr_learners_clust.bico.Rd | 3 man/mlr_learners_clust.cobweb.Rd | 2 man/mlr_learners_clust.flexmix.Rd | 4 man/mlr_learners_clust.genie.Rd | 1 man/mlr_learners_clust.kkmeans.Rd | 15 + man/mlr_learners_clust.kproto.Rd | 1 man/mlr_learners_clust.movMF.Rd | 2 man/mlr_learners_clust.optics.Rd | 2 man/mlr_learners_clust.pam.Rd | 2 man/mlr_learners_clust.skmeans.Rd | 2 man/mlr_learners_clust.som.Rd | 2 man/mlr_learners_clust.specc.Rd | 2 man/mlr_learners_clust.stdbscan.Rd | 3 man/mlr_learners_clust.tclust.Rd | 1 man/mlr_learners_clust.xmeans.Rd | 2 tests/testthat/_snaps/PredictionClust.md |only tests/testthat/_snaps/mlr_learners_clust_bico.md |only tests/testthat/_snaps/mlr_learners_clust_clara.md |only tests/testthat/_snaps/mlr_learners_clust_dbscan_fpc.md |only tests/testthat/_snaps/mlr_learners_clust_flexmix.md |only tests/testthat/_snaps/mlr_learners_clust_genie.md |only tests/testthat/_snaps/mlr_learners_clust_kkmeans.md |only tests/testthat/_snaps/mlr_learners_clust_kproto.md |only tests/testthat/_snaps/mlr_learners_clust_stdbscan.md |only tests/testthat/test_LearnerClust.R | 58 ++++++ tests/testthat/test_MeasureClust.R | 10 + tests/testthat/test_PredictionClust.R | 78 ++++++++- tests/testthat/test_mlr_learners_clust_bico.R | 18 ++ tests/testthat/test_mlr_learners_clust_clara.R | 11 + tests/testthat/test_mlr_learners_clust_dbscan_fpc.R | 7 tests/testthat/test_mlr_learners_clust_flexmix.R | 26 +++ tests/testthat/test_mlr_learners_clust_genie.R | 6 tests/testthat/test_mlr_learners_clust_kkmeans.R | 29 +++ tests/testthat/test_mlr_learners_clust_kproto.R | 6 tests/testthat/test_mlr_learners_clust_movMF.R | 8 tests/testthat/test_mlr_learners_clust_som.R | 9 + tests/testthat/test_mlr_learners_clust_stdbscan.R | 5 79 files changed, 657 insertions(+), 185 deletions(-)
Title: Analysis and Visualization of Complex Networks
Description: Provides tools for the analysis, visualization, and manipulation
of dynamical, social (Saqr et al. (2024) <doi:10.1007/978-3-031-54464-4_10>) and
complex networks (Saqr et al. (2025) <doi:10.1145/3706468.3706513>). The package
supports multiple network formats and offers flexible tools for heterogeneous,
multi-layer, and hierarchical network analysis with simple syntax and
extensive toolset.
Author: Mohammed Saqr [aut, cph],
Sonsoles Lopez-Pernas [aut, cre, cph]
Maintainer: Sonsoles Lopez-Pernas <sonsoles.lopez@uef.fi>
Diff between cograph versions 2.3.6 dated 2026-05-31 and 2.4.4 dated 2026-07-10
cograph-2.3.6/cograph/man/COGRAPH_SCALE.Rd |only cograph-2.3.6/cograph/man/COGRAPH_SCALE_LEGACY.Rd |only cograph-2.3.6/cograph/man/QGRAPH_SCALE.Rd |only cograph-2.3.6/cograph/man/aes-scales.Rd |only cograph-2.3.6/cograph/man/aggregate_duplicate_edges.Rd |only cograph-2.3.6/cograph/man/arrow_base_midpoint.Rd |only cograph-2.3.6/cograph/man/arrow_head_points.Rd |only cograph-2.3.6/cograph/man/arrow_points.Rd |only cograph-2.3.6/cograph/man/arrow_radius.Rd |only cograph-2.3.6/cograph/man/atan2_usr.Rd |only cograph-2.3.6/cograph/man/bezier_points.Rd |only cograph-2.3.6/cograph/man/brain_vertices.Rd |only cograph-2.3.6/cograph/man/build_edge_labels_from_template.Rd |only cograph-2.3.6/cograph/man/build_mcml.Rd |only cograph-2.3.6/cograph/man/cent_to_edge.Rd |only cograph-2.3.6/cograph/man/check_duplicate_edges.Rd |only cograph-2.3.6/cograph/man/circle_vertices.Rd |only cograph-2.3.6/cograph/man/cloud_vertices.Rd |only cograph-2.3.6/cograph/man/cluster_summary.Rd |only cograph-2.3.6/cograph/man/compute_adaptive_esize.Rd |only cograph-2.3.6/cograph/man/compute_circular_layout.Rd |only cograph-2.3.6/cograph/man/compute_connectivity_jitter_horizontal.Rd |only cograph-2.3.6/cograph/man/compute_connectivity_jitter_vertical.Rd |only cograph-2.3.6/cograph/man/compute_edge_curvatures.Rd |only cograph-2.3.6/cograph/man/compute_layout_gephi_fr.Rd |only cograph-2.3.6/cograph/man/compute_plot_limits.Rd |only cograph-2.3.6/cograph/man/compute_polygon_layout.Rd |only cograph-2.3.6/cograph/man/create_edges_df.Rd |only cograph-2.3.6/cograph/man/create_grid_grob.Rd |only cograph-2.3.6/cograph/man/create_nodes_df.Rd |only cograph-2.3.6/cograph/man/cross_vertices.Rd |only cograph-2.3.6/cograph/man/curve_control_point.Rd |only cograph-2.3.6/cograph/man/detect_duplicate_edges.Rd |only cograph-2.3.6/cograph/man/diamond_vertices.Rd |only cograph-2.3.6/cograph/man/disparity.Rd |only cograph-2.3.6/cograph/man/dot-add_cluster_borders.Rd |only cograph-2.3.6/cograph/man/dot-add_cluster_labels.Rd |only cograph-2.3.6/cograph/man/dot-add_heatmap_values.Rd |only cograph-2.3.6/cograph/man/dot-as_mcml.Rd |only cograph-2.3.6/cograph/man/dot-auto_detect_clusters.Rd |only cograph-2.3.6/cograph/man/dot-build_cluster_lookup.Rd |only cograph-2.3.6/cograph/man/dot-build_from_transitions.Rd |only cograph-2.3.6/cograph/man/dot-build_heatmap_base.Rd |only cograph-2.3.6/cograph/man/dot-build_mcml_edgelist.Rd |only cograph-2.3.6/cograph/man/dot-build_mcml_sequence.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_cells.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_connections.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_labels.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_shells.Rd |only cograph-2.3.6/cograph/man/dot-compute_modularity.Rd |only cograph-2.3.6/cograph/man/dot-create_cograph_network.Rd |only cograph-2.3.6/cograph/man/dot-decode_tna_data.Rd |only cograph-2.3.6/cograph/man/dot-detect_mcml_input.Rd |only cograph-2.3.6/cograph/man/dot-disparity_filter_matrix.Rd |only cograph-2.3.6/cograph/man/dot-draw_intra_arc.Rd |only cograph-2.3.6/cograph/man/dot-draw_intra_group_edges.Rd |only cograph-2.3.6/cograph/man/dot-edge_keys.Rd |only cograph-2.3.6/cograph/man/dot-extract_inits.Rd |only cograph-2.3.6/cograph/man/dot-extract_ml_layers.Rd |only cograph-2.3.6/cograph/man/dot-extract_weights.Rd |only cograph-2.3.6/cograph/man/dot-group_tna_to_mcml.Rd |only cograph-2.3.6/cograph/man/dot-heatmap_theme.Rd |only cograph-2.3.6/cograph/man/dot-matrix_to_long.Rd |only cograph-2.3.6/cograph/man/dot-normalize_clusters.Rd |only cograph-2.3.6/cograph/man/dot-plot_compare_all_pairs.Rd |only cograph-2.3.6/cograph/man/dot-plot_heatmap_clustered.Rd |only cograph-2.3.6/cograph/man/dot-plot_heatmap_group_tna.Rd |only cograph-2.3.6/cograph/man/dot-plot_heatmap_single.Rd |only cograph-2.3.6/cograph/man/dot-process_weights.Rd |only cograph-2.3.6/cograph/man/dot-psych_style_defaults.Rd |only cograph-2.3.6/cograph/man/dot-resolve_colors.Rd |only cograph-2.3.6/cograph/man/dot-resolve_ml_colors.Rd |only cograph-2.3.6/cograph/man/dot-resolve_weights.Rd |only cograph-2.3.6/cograph/man/dot-tna_style_defaults.Rd |only cograph-2.3.6/cograph/man/dot-transform_to_plane.Rd |only cograph-2.3.6/cograph/man/dot-translate_qgraph_dots.Rd |only cograph-2.3.6/cograph/man/dot-wrap_communities.Rd |only cograph-2.3.6/cograph/man/draw_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_brain.Rd |only cograph-2.3.6/cograph/man/draw_chip.Rd |only cograph-2.3.6/cograph/man/draw_chip_node_base.Rd |only cograph-2.3.6/cograph/man/draw_circle.Rd |only cograph-2.3.6/cograph/man/draw_circle_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_cloud.Rd |only cograph-2.3.6/cograph/man/draw_cross.Rd |only cograph-2.3.6/cograph/man/draw_curve_with_start_segment.Rd |only cograph-2.3.6/cograph/man/draw_curved_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_curved_edge.Rd |only cograph-2.3.6/cograph/man/draw_curved_edge_base.Rd |only cograph-2.3.6/cograph/man/draw_database.Rd |only cograph-2.3.6/cograph/man/draw_database_node_base.Rd |only cograph-2.3.6/cograph/man/draw_diamond.Rd |only cograph-2.3.6/cograph/man/draw_donut.Rd |only cograph-2.3.6/cograph/man/draw_donut_node_base.Rd |only cograph-2.3.6/cograph/man/draw_donut_pie.Rd |only cograph-2.3.6/cograph/man/draw_donut_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_double_donut_pie.Rd |only cograph-2.3.6/cograph/man/draw_double_donut_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_edge_label_base.Rd |only cograph-2.3.6/cograph/man/draw_ellipse.Rd |only cograph-2.3.6/cograph/man/draw_gear.Rd |only cograph-2.3.6/cograph/man/draw_heart.Rd |only cograph-2.3.6/cograph/man/draw_hexagon.Rd |only cograph-2.3.6/cograph/man/draw_network.Rd |only cograph-2.3.6/cograph/man/draw_network_node_base.Rd |only cograph-2.3.6/cograph/man/draw_neural.Rd |only cograph-2.3.6/cograph/man/draw_neural_node_base.Rd |only cograph-2.3.6/cograph/man/draw_node_base.Rd |only cograph-2.3.6/cograph/man/draw_node_label_base.Rd |only cograph-2.3.6/cograph/man/draw_open_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_pentagon.Rd |only cograph-2.3.6/cograph/man/draw_pie.Rd |only cograph-2.3.6/cograph/man/draw_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_polygon_donut.Rd |only cograph-2.3.6/cograph/man/draw_polygon_donut_node_base.Rd |only cograph-2.3.6/cograph/man/draw_polygon_donut_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_robot.Rd |only cograph-2.3.6/cograph/man/draw_robot_node_base.Rd |only cograph-2.3.6/cograph/man/draw_self_loop.Rd |only cograph-2.3.6/cograph/man/draw_self_loop_base.Rd |only cograph-2.3.6/cograph/man/draw_square.Rd |only cograph-2.3.6/cograph/man/draw_star.Rd |only cograph-2.3.6/cograph/man/draw_straight_edge.Rd |only cograph-2.3.6/cograph/man/draw_straight_edge_base.Rd |only cograph-2.3.6/cograph/man/draw_svg_shape.Rd |only cograph-2.3.6/cograph/man/draw_svg_shape_base.Rd |only cograph-2.3.6/cograph/man/draw_triangle.Rd |only cograph-2.3.6/cograph/man/edge_endpoint.Rd |only cograph-2.3.6/cograph/man/ellipse_vertices.Rd |only cograph-2.3.6/cograph/man/expand_param.Rd |only cograph-2.3.6/cograph/man/filter_edges_by_weight.Rd |only cograph-2.3.6/cograph/man/find_curve_split_index.Rd |only cograph-2.3.6/cograph/man/fontface_to_numeric.Rd |only cograph-2.3.6/cograph/man/fontface_to_string.Rd |only cograph-2.3.6/cograph/man/format_ci_range.Rd |only cograph-2.3.6/cograph/man/format_edge_label_template.Rd |only cograph-2.3.6/cograph/man/format_pvalue.Rd |only cograph-2.3.6/cograph/man/gear_vertices.Rd |only cograph-2.3.6/cograph/man/get_donut_base_vertices.Rd |only cograph-2.3.6/cograph/man/get_edge_label_position.Rd |only cograph-2.3.6/cograph/man/get_edge_order.Rd |only cograph-2.3.6/cograph/man/get_node_order.Rd |only cograph-2.3.6/cograph/man/get_scale_constants.Rd |only cograph-2.3.6/cograph/man/get_shape_vertices.Rd |only cograph-2.3.6/cograph/man/get_significance_stars.Rd |only cograph-2.3.6/cograph/man/get_svg_shape.Rd |only cograph-2.3.6/cograph/man/get_template_from_style.Rd |only cograph-2.3.6/cograph/man/get_x_scale.Rd |only cograph-2.3.6/cograph/man/get_y_scale.Rd |only cograph-2.3.6/cograph/man/globals.Rd |only cograph-2.3.6/cograph/man/handle_deprecated_param.Rd |only cograph-2.3.6/cograph/man/heart_vertices.Rd |only cograph-2.3.6/cograph/man/hexagon_vertices.Rd |only cograph-2.3.6/cograph/man/in_to_usr_x.Rd |only cograph-2.3.6/cograph/man/in_to_usr_y.Rd |only cograph-2.3.6/cograph/man/init_registries.Rd |only cograph-2.3.6/cograph/man/input-parse.Rd |only cograph-2.3.6/cograph/man/inset_polygon_vertices.Rd |only cograph-2.3.6/cograph/man/is_cograph_network.Rd |only cograph-2.3.6/cograph/man/is_cograph_theme.Rd |only cograph-2.3.6/cograph/man/is_symmetric_matrix.Rd |only cograph-2.3.6/cograph/man/layout-registry.Rd |only cograph-2.3.6/cograph/man/layout_gephi_fr.Rd |only cograph-2.3.6/cograph/man/map_edge_colors.Rd |only cograph-2.3.6/cograph/man/map_node_colors.Rd |only cograph-2.3.6/cograph/man/map_qgraph_lty.Rd |only cograph-2.3.6/cograph/man/map_qgraph_shape.Rd |only cograph-2.3.6/cograph/man/offset_point.Rd |only cograph-2.3.6/cograph/man/parse_input.Rd |only cograph-2.3.6/cograph/man/parse_svg.Rd |only cograph-2.3.6/cograph/man/pentagon_vertices.Rd |only cograph-2.3.6/cograph/man/perp_mid.Rd |only cograph-2.3.6/cograph/man/plot-bootstrap.Rd |only cograph-2.3.6/cograph/man/plot-compare.Rd |only cograph-2.3.6/cograph/man/plot-heatmap.Rd |only cograph-2.3.6/cograph/man/plot-mlvar.Rd |only cograph-2.3.6/cograph/man/plot-nestimate.Rd |only cograph-2.3.6/cograph/man/plot-permutation.Rd |only cograph-2.3.6/cograph/man/plot-transitions.Rd |only cograph-2.3.6/cograph/man/point_angle.Rd |only cograph-2.3.6/cograph/man/point_distance.Rd |only cograph-2.3.6/cograph/man/point_on_circle.Rd |only 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cograph-2.3.6/cograph/man/render-legend-shared.Rd |only cograph-2.3.6/cograph/man/render-nodes.Rd |only cograph-2.3.6/cograph/man/render_edge_labels_grid.Rd |only cograph-2.3.6/cograph/man/render_edges_base.Rd |only cograph-2.3.6/cograph/man/render_edges_grid.Rd |only cograph-2.3.6/cograph/man/render_edges_splot.Rd |only cograph-2.3.6/cograph/man/render_legend_grid.Rd |only cograph-2.3.6/cograph/man/render_legend_splot.Rd |only cograph-2.3.6/cograph/man/render_node_labels_grid.Rd |only cograph-2.3.6/cograph/man/render_nodes_base.Rd |only cograph-2.3.6/cograph/man/render_nodes_grid.Rd |only cograph-2.3.6/cograph/man/render_nodes_splot.Rd |only cograph-2.3.6/cograph/man/rescale_layout.Rd |only cograph-2.3.6/cograph/man/resolve_aesthetic.Rd |only cograph-2.3.6/cograph/man/resolve_centrality_sizes.Rd |only cograph-2.3.6/cograph/man/resolve_donut_params.Rd |only cograph-2.3.6/cograph/man/resolve_edge_colors.Rd |only cograph-2.3.6/cograph/man/resolve_edge_labels.Rd |only 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Title: Columnar Query Engine for Larger-than-RAM Data
Description: A minimal columnar query engine with lazy execution on datasets
larger than RAM. Provides 'dplyr'-like verbs (filter(), select(), mutate(),
group_by(), summarise(), joins, window functions) and common aggregations
(n(), sum(), mean(), min(), max(), sd(), first(), last()) backed by a
pure C11 pull-based execution engine and a custom on-disk format ('.vtr').
Reads and writes 'GeoTIFF' (including tiled and 'BigTIFF' layouts) and a
tiled raster format ('.vec') with overview pyramids and time cubes for
larger-than-RAM raster data. Streams vector operations (spatial transforms,
point-in-polygon and nearest-feature joins including a two-sided
grid-partitioned join, select-by-location, clip, erase, dissolve,
'rasterization', 'polygonization', and contouring) through 'sf', and runs
raster operations (zonal statistics, focal windows, terrain derivatives,
resample or 'reproject' warp, polygon masking, map algebra, and 'mosaicking')
in native C or over the tiled '.vec' format, one batch or tile at [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between vectra versions 0.9.8 dated 2026-07-01 and 0.11.1 dated 2026-07-10
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vectra-0.11.1/vectra/man/collect_chunked.Rd | 6 vectra-0.11.1/vectra/man/contours.Rd | 7 vectra-0.11.1/vectra/man/feature_knn.Rd |only vectra-0.11.1/vectra/man/floor_time.Rd | 66 vectra-0.11.1/vectra/man/kmer.Rd |only vectra-0.11.1/vectra/man/offload.Rd | 9 vectra-0.11.1/vectra/man/polygonize.Rd | 7 vectra-0.11.1/vectra/man/rast_feature_distance.Rd |only vectra-0.11.1/vectra/man/rolling.Rd | 112 - vectra-0.11.1/vectra/man/seq_expressions.Rd |only vectra-0.11.1/vectra/man/spatial_centerline.Rd | 7 vectra-0.11.1/vectra/man/spatial_clip.Rd | 7 vectra-0.11.1/vectra/man/spatial_construct.Rd | 7 vectra-0.11.1/vectra/man/spatial_dissolve.Rd | 7 vectra-0.11.1/vectra/man/spatial_eliminate.Rd | 7 vectra-0.11.1/vectra/man/spatial_explode.Rd | 7 vectra-0.11.1/vectra/man/spatial_filter.Rd | 7 vectra-0.11.1/vectra/man/spatial_join.Rd | 7 vectra-0.11.1/vectra/man/spatial_knn.Rd | 7 vectra-0.11.1/vectra/man/spatial_line_merge.Rd | 7 vectra-0.11.1/vectra/man/spatial_locate.Rd | 7 vectra-0.11.1/vectra/man/spatial_map.Rd | 7 vectra-0.11.1/vectra/man/spatial_overlay.Rd | 369 +-- vectra-0.11.1/vectra/man/spatial_polygonize.Rd | 7 vectra-0.11.1/vectra/man/spatial_route.Rd | 7 vectra-0.11.1/vectra/man/spatial_service_area.Rd | 7 vectra-0.11.1/vectra/man/spatial_simplify.Rd | 7 vectra-0.11.1/vectra/man/spatial_smooth.Rd | 7 vectra-0.11.1/vectra/man/spatial_snap.Rd | 7 vectra-0.11.1/vectra/man/spatial_snap_grid.Rd | 7 vectra-0.11.1/vectra/man/spatial_split.Rd | 7 vectra-0.11.1/vectra/man/spatial_topology.Rd | 7 vectra-0.11.1/vectra/man/tbl_bed.Rd |only vectra-0.11.1/vectra/man/tbl_csv.Rd | 31 vectra-0.11.1/vectra/man/tbl_fasta.Rd |only vectra-0.11.1/vectra/man/tbl_fastq.Rd |only vectra-0.11.1/vectra/man/vectra_mem.Rd |only vectra-0.11.1/vectra/src/Makevars | 2 vectra-0.11.1/vectra/src/agg_ops.c | 138 - vectra-0.11.1/vectra/src/agg_ops.h | 23 vectra-0.11.1/vectra/src/agg_spill.c |only vectra-0.11.1/vectra/src/agg_spill.h |only vectra-0.11.1/vectra/src/array.c | 12 vectra-0.11.1/vectra/src/array.h | 5 vectra-0.11.1/vectra/src/bed_scan.c |only vectra-0.11.1/vectra/src/bed_scan.h |only vectra-0.11.1/vectra/src/block.c | 2 vectra-0.11.1/vectra/src/builder.c | 19 vectra-0.11.1/vectra/src/byte_reader.c |only vectra-0.11.1/vectra/src/byte_reader.h |only vectra-0.11.1/vectra/src/collect.c | 139 - vectra-0.11.1/vectra/src/csv_scan.c | 35 vectra-0.11.1/vectra/src/csv_scan.h | 11 vectra-0.11.1/vectra/src/dropcol.c |only vectra-0.11.1/vectra/src/dropcol.h |only vectra-0.11.1/vectra/src/expr.c | 3 vectra-0.11.1/vectra/src/expr.h | 18 vectra-0.11.1/vectra/src/expr_seq.c |only vectra-0.11.1/vectra/src/fasta_scan.c |only vectra-0.11.1/vectra/src/fasta_scan.h |only vectra-0.11.1/vectra/src/feature_knn.c |only vectra-0.11.1/vectra/src/feature_knn.h |only vectra-0.11.1/vectra/src/fuzzy_join.c | 653 ++++-- vectra-0.11.1/vectra/src/fuzzy_join.h | 59 vectra-0.11.1/vectra/src/group_agg.c | 339 --- vectra-0.11.1/vectra/src/group_agg.h | 13 vectra-0.11.1/vectra/src/group_topn.c | 267 +- vectra-0.11.1/vectra/src/group_topn.h | 43 vectra-0.11.1/vectra/src/init.c | 30 vectra-0.11.1/vectra/src/interval_join.c | 706 +++--- vectra-0.11.1/vectra/src/interval_join.h | 56 vectra-0.11.1/vectra/src/join.c | 1060 +++++++--- vectra-0.11.1/vectra/src/join.h | 42 vectra-0.11.1/vectra/src/key_arena.c |only vectra-0.11.1/vectra/src/key_arena.h |only vectra-0.11.1/vectra/src/key_snap.c |only vectra-0.11.1/vectra/src/key_snap.h |only vectra-0.11.1/vectra/src/kmer.c |only vectra-0.11.1/vectra/src/kmer.h |only vectra-0.11.1/vectra/src/r_bridge.c | 24 vectra-0.11.1/vectra/src/r_bridge.h | 20 vectra-0.11.1/vectra/src/r_bridge_core.c | 42 vectra-0.11.1/vectra/src/r_bridge_io.c | 34 vectra-0.11.1/vectra/src/r_bridge_nodes.c | 72 vectra-0.11.1/vectra/src/rec_spill.c |only vectra-0.11.1/vectra/src/rec_spill.h |only vectra-0.11.1/vectra/src/rowid.c |only vectra-0.11.1/vectra/src/rowid.h |only vectra-0.11.1/vectra/src/scan.c | 25 vectra-0.11.1/vectra/src/scan.h | 3 vectra-0.11.1/vectra/src/seq_util.h |only vectra-0.11.1/vectra/src/sort.c | 191 + vectra-0.11.1/vectra/src/sort.h | 15 vectra-0.11.1/vectra/src/tdc/VENDORED_FROM | 2 vectra-0.11.1/vectra/src/tdc/include/tdc/codec.h | 55 vectra-0.11.1/vectra/src/tdc/src/api/decode.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/decode_dict.c |only vectra-0.11.1/vectra/src/tdc/src/api/decode_ex.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/decode_impl.c | 27 vectra-0.11.1/vectra/src/tdc/src/api/decode_into.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/decode_varlen.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/driver_internal.h | 42 vectra-0.11.1/vectra/src/tdc/src/api/encode.c | 18 vectra-0.11.1/vectra/src/tdc/src/format/stats.c | 2 vectra-0.11.1/vectra/src/tdc/src/model/dict.c | 2 vectra-0.11.1/vectra/src/topn.c | 565 ++--- vectra-0.11.1/vectra/src/types.h | 33 vectra-0.11.1/vectra/src/vtr1_tdc.c | 375 ++- vectra-0.11.1/vectra/src/vtr1_tdc.h | 24 vectra-0.11.1/vectra/src/vtr_append.c | 7 vectra-0.11.1/vectra/src/vtr_codec_tdc.c | 389 +++ vectra-0.11.1/vectra/src/vtr_codec_tdc.h | 77 vectra-0.11.1/vectra/src/vtr_overlay.c | 168 + vectra-0.11.1/vectra/src/window.c | 826 +++++++ vectra-0.11.1/vectra/src/window.h | 38 vectra-0.11.1/vectra/tests/testthat/test-agg-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-bed-scan.R |only vectra-0.11.1/vectra/tests/testthat/test-collect-churn.R |only vectra-0.11.1/vectra/tests/testthat/test-compression.R | 28 vectra-0.11.1/vectra/tests/testthat/test-csv-scan.R | 83 vectra-0.11.1/vectra/tests/testthat/test-dict-defer.R |only vectra-0.11.1/vectra/tests/testthat/test-fasta-scan.R |only vectra-0.11.1/vectra/tests/testthat/test-feature-knn.R |only vectra-0.11.1/vectra/tests/testthat/test-filter.R | 33 vectra-0.11.1/vectra/tests/testthat/test-fuzzy-join-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-fuzzy-join.R |only vectra-0.11.1/vectra/tests/testthat/test-group-topn-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-interval-join-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-join-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-kmer-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-kmer.R |only vectra-0.11.1/vectra/tests/testthat/test-offload.R | 19 vectra-0.11.1/vectra/tests/testthat/test-rast-feature-distance.R |only vectra-0.11.1/vectra/tests/testthat/test-seq-expr.R |only vectra-0.11.1/vectra/tests/testthat/test-sort-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-spatial-dissolve.R | 8 vectra-0.11.1/vectra/tests/testthat/test-spatial-filter-clip.R | 10 vectra-0.11.1/vectra/tests/testthat/test-spatial-join-nearest.R | 4 vectra-0.11.1/vectra/tests/testthat/test-spatial-overlay.R | 32 vectra-0.11.1/vectra/tests/testthat/test-spatial.R | 10 vectra-0.11.1/vectra/tests/testthat/test-topn.R | 53 vectra-0.11.1/vectra/tests/testthat/test-warp-subtile.R |only vectra-0.11.1/vectra/tests/testthat/test-window-mixed.R |only vectra-0.11.1/vectra/tests/testthat/test-windows.R | 249 ++ vectra-0.11.1/vectra/tests/testthat/test-write-vtr-node.R | 36 vectra-0.11.1/vectra/vignettes/formats.Rmd | 34 vectra-0.11.1/vectra/vignettes/large-data.Rmd | 4 vectra-0.11.1/vectra/vignettes/sdm.Rmd | 65 vectra-0.11.1/vectra/vignettes/streaming-spatial.Rmd | 8 vectra-0.9.8/vectra/src/csv_reader.c |only vectra-0.9.8/vectra/src/csv_reader.h |only 195 files changed, 7403 insertions(+), 2931 deletions(-)
Title: PD-Clustering and Related Methods
Description: Probabilistic distance clustering (PD-clustering) is an iterative, distribution-free, probabilistic clustering method. PD-clustering assigns units to a cluster according to their probability of membership under the constraint that the product of the probability and the distance of each point to any cluster center is a constant. PD-clustering is a flexible method that can be used with elliptical clusters, outliers, or noisy data. PDQ is an extension of the algorithm for clusters of different sizes. GPDC and TPDC use a dissimilarity measure based on densities. Factor PD-clustering (FPDC) is a factor clustering method that involves a linear transformation of variables and a cluster optimizing the PD-clustering criterion. It works on high-dimensional data sets.
Author: Cristina Tortora [aut, cre, cph],
Noe Vidales [aut],
Francesco Palumbo [aut],
Tina Kalra [aut],
Paul D. McNicholas [fnd]
Maintainer: Cristina Tortora <grikris1@gmail.com>
Diff between FPDclustering versions 2.3.5 dated 2025-03-05 and 2.3.6 dated 2026-07-10
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/GPDC.R | 8 ++++---- R/PDQ.R | 9 ++++----- R/TPDC.R | 8 ++++---- man/GPDC.Rd | 4 +++- man/PDQ.Rd | 4 +++- man/TPDC.Rd | 4 +++- 8 files changed, 32 insertions(+), 27 deletions(-)
Title: Creates Group Sequential Trial Designs when Early Outcomes are
Available
Description: Methods to construct and power group sequential clinical trial
designs for outcomes at multiple times. Outcomes at earlier times provide
information on the final (primary) outcome. A range of recruitment and
correlation models are available as are methods to simulate data in order to
explore design operating characteristics. For more details see Parsons (2024)
<doi:10.1186/s12874-024-02174-w>.
Author: Nick Parsons [aut, cre]
Maintainer: Nick Parsons <nick.parsons@warwick.ac.uk>
Diff between gsearly versions 1.0.0 dated 2026-01-23 and 1.1.0 dated 2026-07-10
DESCRIPTION | 7 - MD5 | 34 +++--- R/implementation_functions.R | 223 ++++++++++++++++++++++--------------------- R/output_functions.R | 14 +- R/plot_functions.R | 44 ++++---- R/recruitment_functions.R | 2 R/simulation_functions.R | 77 +++++++++----- R/utility_functions.R | 23 ++-- R/validation_functions.R | 39 +++++++ man/fixedSampsize.Rd | 6 - man/gsearly-package.Rd | 3 man/gsearlyFit.Rd | 12 +- man/gsearlyModel.Rd | 45 ++++---- man/gsearlySimulate.Rd | 24 ++-- man/gsearlyUser.Rd | 23 ++-- man/modelParameters.Rd | 4 man/roundInterims.Rd | 21 +--- man/simdataExtract.Rd | 20 +-- 18 files changed, 356 insertions(+), 265 deletions(-)
Title: Robust Linear Mixed Effects Models
Description: Implements the Robust Scoring Equations estimator to fit linear
mixed effects models robustly.
Robustness is achieved by modification of the scoring equations
combined with the Design Adaptive Scale approach.
Author: Manuel Koller [aut, cre]
Maintainer: Manuel Koller <kollerma@proton.me>
Diff between robustlmm versions 3.4-5 dated 2026-06-21 and 3.5.0-1 dated 2026-07-10
DESCRIPTION | 16 MD5 | 206 ++- NAMESPACE | 15 NEWS.md |only R/AllClass.R | 218 +++ R/DAS-scale.R | 231 +++ R/accessors.R | 55 R/anova.R |only R/bootstrapWald.R | 60 R/df_satterthwaite.R |only R/emmeans.R | 53 R/fit.effects.R | 15 R/fitDatasets.R | 84 + R/fromLme4.R | 8 R/generateMixedEffectDatasets.R | 129 + R/helpers.R | 129 + R/influence.R | 82 - R/influence_full.R | 436 +++++- R/options.R |only R/plot.R | 31 R/ransac.R | 719 ++++++++++- R/redescendingPsi.R | 266 +++- R/rlmer.R | 460 ++++++- README.md | 25 build/vignette.rds |binary inst/doc/rlmer.R | 18 inst/doc/rlmer.Rnw | 328 ++++- inst/doc/rlmer.pdf |binary inst/doc/robustlmm-3.5.0.R |only inst/doc/robustlmm-3.5.0.Rnw |only inst/doc/robustlmm-3.5.0.pdf |only inst/doc/simulationStudies.R | 10 inst/doc/simulationStudies.Rnw | 166 ++ inst/doc/simulationStudies.pdf |binary inst/simulationStudy/consistencyAndEfficiencyBlockDiagonal.R | 2 inst/simulationStudy/consistencyAndEfficiencyDiagonal.R | 2 inst/simulationStudy/convergence.R | 6 inst/simulationStudy/dasmcValidation.R |only inst/simulationStudy/dasmcValidation_results.rds |only inst/simulationStudy/leverageBreakdown.R |only inst/simulationStudy/leverageBreakdown_results.rds |only inst/simulationStudy/leverageGES.R |only inst/simulationStudy/leverageGES_results.rds |only inst/simulationStudy/mallowsEfficiency.R |only inst/simulationStudy/mallowsEfficiency_results.rds |only inst/simulationStudy/ransacBasin.R |only inst/simulationStudy/ransacBasin_results.rds |only inst/simulationStudy/ransacConsensus.R |only inst/simulationStudy/ransacConsensus_results.rds |only inst/simulationStudy/robustnessBlockDiagonal.R | 2 inst/simulationStudy/robustnessDiagonal.R | 4 inst/simulationStudy/scoreTest.R |only inst/simulationStudy/scoreTest_results.rds |only inst/simulationStudy/structuredCovariances.R |only inst/simulationStudy/structuredCovariances_results.rds |only man/anova.rlmerMod.Rd |only man/bisquarePsi.Rd | 6 man/confint.rlmerMod.Rd | 25 man/cooks.distance.rlmerMod.Rd | 38 man/fitDatasets.Rd | 23 man/generateRepeatedMeasuresDatasets.Rd |only man/getME.Rd | 9 man/hatvalues.rlmerMod.Rd |only man/implicitIF.Rd | 4 man/implicitIF_full.Rd | 21 man/lqqPsi.Rd |only man/makeBisquarePsi.Rd | 22 man/makeRobustbasePsi.Rd |only man/ransac_basin_radius.Rd |only man/ransac_lme4.Rd | 91 + man/rlmer.Rd | 36 man/rlmerMod-class.Rd | 53 man/rlmer_ransac.Rd | 48 man/robustlmm-options.Rd |only man/vcov.rlmerMod.Rd | 8 man/vcov_sandwich.Rd | 10 src/rlmerMatrixUtils.cpp | 136 ++ tests/DAS-scale.R | 4 tests/anova-boot-guard.R |only tests/anova-robust-null.R |only tests/anova-satterthwaite-df.R |only tests/anova-score.R |only tests/anova.R |only tests/asymptoticEfficiency.R | 4 tests/bisquare-psi.R | 57 tests/bootstrapWald.R | 12 tests/cache-invalidation.R | 4 tests/cluster-diagnostics.R |only tests/compare-methods.R | 88 - tests/compare-methods.Rout.save | 450 +----- tests/confint-satterthwaite.R |only tests/custom-redescending-psi.R | 4 tests/dastau-fallback.R |only tests/dastau-mc.R |only tests/design-weights-breakdown.R |only tests/design-weights-das.R |only tests/design-weights.R |only tests/emmeans-satterthwaite.R |only tests/expectations.R | 4 tests/fitDatasets-new-methods.R | 91 + tests/fitDatasets.R | 4 tests/getME.R | 15 tests/getME.Rout.save | 44 tests/influence-full-speed.R |only tests/influence-weights-offset.R |only tests/influence.R | 11 tests/multipleGroupingFactorsTestData.R | 4 tests/ransac-nonsingular.R |only tests/ransac-scope.R |only tests/ransac-ws12.R |only tests/ransac.R | 4 tests/rlmerMod.R | 4 tests/sandwich-vs-bootstrap.R | 4 tests/satterthwaite-coverage.R |only tests/simulationStudies.R | 4 tests/stahel-obr.R | 4 tests/structured-inference.R |only tests/structuredCovariances.R |only tests/subset.R | 4 tests/summary-satterthwaite.R |only tests/tau.R | 4 tests/testMatrices.R | 4 tests/test_generateLongitudinalDatasets.R | 4 tests/vcov-jsweep-smoke.R | 4 tests/vcov-varpar.R |only tests/weights.R | 45 tests/wgt-b-alignment.R |only vignettes/rlmer.Rnw | 328 ++++- vignettes/rlmer.bib | 223 +++ vignettes/robustlmm-3.5.0-numbers.rds |only vignettes/robustlmm-3.5.0.Rnw |only vignettes/simulationStudies.Rnw | 166 ++ 132 files changed, 5043 insertions(+), 861 deletions(-)
Title: Kernel Partial Correlation Coefficient
Description: Implementations of two empirical versions the kernel partial correlation (KPC) coefficient
and the associated variable selection algorithms. KPC is a measure of the strength of conditional
association between Y and Z given X, with X, Y, Z being random variables taking values in
general topological spaces. As the name suggests, KPC is defined in terms of kernels on
reproducing kernel Hilbert spaces (RKHSs). The population KPC is a deterministic number
between 0 and 1; it is 0 if and only if Y is conditionally independent of Z given X, and it is 1 if
and only if Y is a measurable function of Z and X. One empirical KPC estimator is based on
geometric graphs, such as K-nearest neighbor graphs and minimum spanning trees, and is
consistent under very weak conditions. The other empirical estimator, defined using conditional
mean embeddings (CMEs) as used in the RKHS literature, is also consistent under suitable
conditions. Using KPC, a stepwise forward variable selection algorithm KFOCI (usin [...truncated...]
Author: Zhen Huang [aut, cre],
Nabarun Deb [ctb],
Bodhisattva Sen [ctb],
Benjamin Lang [ctb]
Maintainer: Zhen Huang <zh2395@columbia.edu>
Diff between KPC versions 0.1.3 dated 2026-05-02 and 0.1.4 dated 2026-07-10
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 2 +- NEWS.md | 3 +++ R/KPC.R | 10 ++++++++-- 5 files changed, 21 insertions(+), 12 deletions(-)
Title: A Unified Time Series Event Detection Framework
Description: By analyzing time series, it is possible to observe significant changes in the behavior of observations that frequently characterize events. Events present themselves as anomalies, change points, or motifs. In the literature, there are several methods for detecting events. However, searching for a suitable time series method is a complex task, especially considering that the nature of events is often unknown. This work presents Harbinger, a framework for integrating and analyzing event detection methods. Harbinger contains several state-of-the-art methods described in Salles et al. (2020) <doi:10.5753/sbbd.2020.13626>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Anthony Heimlich [aut],
Antonio Castro [aut],
Antonio Mello [aut],
Diego Carvalho [ctb],
Eduardo Bezerra [ctb],
Ellen Paixao [aut],
Fernando Fraga [aut],
Gabriel Giuliano [aut],
Heraldo Borges [aut],
Igor Andrade [ [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between harbinger versions 2.0.757 dated 2026-05-22 and 2.1.707 dated 2026-07-10
DESCRIPTION | 6 ++--- MD5 | 42 ++++++++++++++++++++++++++++++++---- NAMESPACE | 33 ++++++++++++++++++++++++++++ R/har_online_executor.R |only R/har_online_memory.R |only R/har_online_session.R |only R/har_online_sources.R |only R/har_stream_eval.R |only R/har_stream_experiment.R |only README.md | 4 +++ build/partial.rdb |binary man/collect_batch_log.Rd |only man/collect_detection.Rd |only man/collect_trace.Rd |only man/evaluate.har_stream_eval.Rd |only man/fit.har_online_session.Rd |only man/har_memory_full.Rd |only man/har_memory_last_observations.Rd |only man/har_memory_sliding.Rd |only man/har_online_detect_only.Rd |only man/har_online_executor.Rd |only man/har_online_incremental.Rd |only man/har_online_memory.Rd |only man/har_online_refit_full.Rd |only man/har_online_session.Rd |only man/har_online_sources.Rd |only man/har_source.Rd |only man/har_source_callback.Rd |only man/har_source_dataframe.Rd |only man/har_source_kafka.Rd |only man/har_source_simulated.Rd |only man/har_stream_eval.Rd |only man/har_stream_experiment.Rd |only man/ingest.Rd |only man/is_finished.Rd |only man/next_observation.Rd |only man/run_online.Rd |only man/source_info.Rd |only man/step_online.Rd |only 39 files changed, 78 insertions(+), 7 deletions(-)
Title: Deep Python Extensions for 'daltoolbox'
Description: Extends 'daltoolbox' with Python-backed components for deep learning,
scikit-learn classification, and time-series forecasting through
'reticulate'. The package provides objects that follow the 'daltoolbox'
architecture while delegating model creation, fitting, encoding, and
prediction to Python libraries such as 'torch' and 'scikit-learn'. In the
package name, 'dp' stands for 'Deep Python'. The overall workflow is
inspired by the Experiment Lines approach described in Ogasawara et al.
(2009) <doi:10.1007/978-3-642-02279-1_20>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Diego Salles [aut],
Erich Carvalho [aut],
Janio Lima [aut],
Joao Kongevold [aut],
Lucas Tavares [aut],
Eduardo Bezerra [ctb],
CEFET/RJ [cph]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolboxdp versions 1.3.757 dated 2026-06-26 and 1.3.767 dated 2026-07-10
DESCRIPTION | 6 ++--- MD5 | 30 +++++++++++++------------- R/autoenc_conv_e.R | 9 ++++--- R/autoenc_conv_ed.R | 5 ++-- R/autoenc_lstm_e.R | 10 ++++---- R/autoenc_lstm_ed.R | 6 ++--- R/torch_reg_mlp.R | 5 ++-- R/ts_lstm.R | 12 ++++++---- inst/python/autoenc_conv.py | 50 ++++++++++++++++++++++++++++++++------------ inst/python/autoenc_lstm.py | 12 +++++++--- inst/python/ts_lstm.py | 12 +++++++--- man/autoenc_conv_e.Rd | 7 +++--- man/autoenc_conv_ed.Rd | 3 +- man/autoenc_lstm_e.Rd | 6 ++--- man/autoenc_lstm_ed.Rd | 6 ++--- man/ts_lstm.Rd | 10 +++++--- 16 files changed, 117 insertions(+), 72 deletions(-)
Title: Coordinate System Transformations for Generic Map Data
Description: Transform coordinates from a specified source to a specified
target map projection. This uses the 'PROJ' library directly, via the 'PROJ' package.
The 'reproj()' function is generic, methods may be added to remove the need for an explicit
source definition. This is for use primarily to
transform generic data formats and direct leverage of the underlying
'PROJ' library. (There are transformations that aren't possible with 'PROJ' and
that are provided by the 'GDAL' library, a limitation which users of this
package should be aware of.) The 'PROJ' library is available at
<https://proj.org/>.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between reproj versions 0.7.0 dated 2024-06-11 and 0.8.0 dated 2026-07-10
reproj-0.7.0/reproj/R/proj.R |only reproj-0.8.0/reproj/DESCRIPTION | 23 +- reproj-0.8.0/reproj/MD5 | 30 +- reproj-0.8.0/reproj/NAMESPACE | 6 reproj-0.8.0/reproj/NEWS.md | 25 ++ reproj-0.8.0/reproj/R/reproj-extent.R | 162 ++++++++++----- reproj-0.8.0/reproj/R/reproj-external-types.R | 3 reproj-0.8.0/reproj/R/reproj-package.R | 9 reproj-0.8.0/reproj/R/reproj.R | 74 +----- reproj-0.8.0/reproj/R/zzz.R | 9 reproj-0.8.0/reproj/man/reproj-package.Rd | 16 - reproj-0.8.0/reproj/man/reproj.Rd | 55 +---- reproj-0.8.0/reproj/man/reproj_extent.Rd | 12 - reproj-0.8.0/reproj/tests/testthat/test-extent.R |only reproj-0.8.0/reproj/tests/testthat/test-external-types.R |only reproj-0.8.0/reproj/tests/testthat/test-reproj-PROJ.R | 1 reproj-0.8.0/reproj/tests/testthat/test-reproj-args.R |only reproj-0.8.0/reproj/tests/testthat/test-reproj-proj4.R | 29 -- 18 files changed, 218 insertions(+), 236 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 1.5.4.2 dated 2026-06-29 and 1.5.4.3 dated 2026-07-10
DESCRIPTION | 6 +-- MD5 | 26 ++++++------- NEWS.md | 7 +++ R/Driver.R | 11 ++--- R/storage-config.R | 9 +--- R/storage-locations.R | 64 ++++------------------------------ R/storage.R | 47 +++++------------------- man/duckdb_storage.Rd | 36 +++---------------- man/duckdb_storage_config.Rd | 9 +--- src/duckdb.tar.xz |binary tests/testthat/test-extension_path.R | 4 +- tests/testthat/test-storage-config.R | 31 ++++------------ tests/testthat/test-storage-markers.R | 6 +-- tests/testthat/test-storage-resolve.R | 29 +-------------- 14 files changed, 75 insertions(+), 210 deletions(-)
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence
problem including two-sample, K-sample (non-parametric ANOVA),
correlation, censored, ordered and multivariate problems described
in <doi:10.18637/jss.v028.i08>.
Author: Torsten Hothorn [aut, cre] ,
Henric Winell [aut] ,
Kurt Hornik [aut] ,
Mark A. van de Wiel [aut] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between coin versions 1.4-4 dated 2026-06-30 and 1.4-5 dated 2026-07-10
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 14 ++++++++++++++ inst/doc/Implementation.pdf |binary inst/doc/LegoCondInf.Rnw | 2 +- inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.R | 18 +++++++++--------- inst/doc/MAXtest.Rnw | 20 ++++++++++---------- inst/doc/MAXtest.pdf |binary inst/doc/coin.pdf |binary tests/bugfixes.R | 2 +- tests/bugfixes.Rout.save | 6 +++--- vignettes/LegoCondInf.Rnw | 2 +- vignettes/MAXtest.Rnw | 20 ++++++++++---------- 16 files changed, 67 insertions(+), 53 deletions(-)
Title: Clustering-Based K-Nearest Neighbor Regression for Longitudinal
Data
Description: Implements the 'CKNNRLD' algorithm (Clustering-Based K-Nearest
Neighbor Regression for Longitudinal Data) for improving K-Nearest
Neighbor ('KNN') regression on longitudinal data through cluster-based
partitioning and localized prediction. Offers enhanced computational
efficiency and accuracy for high-volume longitudinal datasets. The
acronym 'KNN' stands for K-Nearest Neighbor. References: Loeloe MS,
Tabatabaei SM, Sefidkar R, Mehrparvar AH, Jambarsang S (2025).
"Boosting K-nearest neighbor regression performance for longitudinal
data through a novel learning approach." BMC Bioinformatics, 26, 232.
<doi:10.1186/s12859-025-06205-1>.
Author: Mohammad Sadegh Loeloe [aut, cre],
Seyyed Mohammad Tabatabaei [aut],
Reyhane Sefidkar [aut],
Amir Houshang Mehrparvar [aut],
Sara Jambarsang [aut, ths]
Maintainer: Mohammad Sadegh Loeloe <mslbiostat@gmail.com>
Diff between CKNNRLD versions 0.1.4 dated 2026-06-09 and 0.2.0 dated 2026-07-10
CKNNRLD-0.1.4/CKNNRLD/R/CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/DESCRIPTION | 12 ++++---- CKNNRLD-0.2.0/CKNNRLD/MD5 | 33 ++++++++++++++++++++--- CKNNRLD-0.2.0/CKNNRLD/NAMESPACE | 18 ++++++++++++ CKNNRLD-0.2.0/CKNNRLD/R/CKNNRLD_example.R |only CKNNRLD-0.2.0/CKNNRLD/R/benchmark.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/coef.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/fitted.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/importance.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/performance.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/plot.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/predict.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/print.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/residuals.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/return_model.R |only CKNNRLD-0.2.0/CKNNRLD/R/simulateCKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/summary.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/data |only CKNNRLD-0.2.0/CKNNRLD/man/CKNNRLD.Rd | 33 +++++++++++------------ CKNNRLD-0.2.0/CKNNRLD/man/CKNNRLD_example.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/benchmark.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/coef.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/fitted.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/importance.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/performance.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/plot.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/predict.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/print.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/residuals.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/simulateCKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/summary.CKNNRLD.Rd |only 31 files changed, 71 insertions(+), 25 deletions(-)
Title: Agentic Item Generation, Review, and Analysis
Description: Provides tools for validating, generating, reviewing, reporting,
and visualising assessment item generation workflows. The package supports
tabular item-bank templates, item-bank validation, 'Python'-backed agentic
generation workflows, multimodal diagram generation, quality summaries, and
'HTML' reporting. External artificial intelligence services and related
'API' calls require user-supplied credentials and are not called during
package checks. The workflow is informed by automatic item generation
methods described by Gierl and Haladyna (2013, ISBN:9780415897518) and
evidence-centered assessment design described by Mislevy et al. (2003)
<doi:10.1002/j.2333-8504.2003.tb01908.x>.
Author: Moses O. Omopekunola [aut, cre]
Maintainer: Moses O. Omopekunola <omopekunola.m@hse.ru>
Diff between AIGRA versions 0.1.2 dated 2026-06-05 and 0.2.0 dated 2026-07-10
DESCRIPTION | 6 MD5 | 49 +- NAMESPACE | 4 NEWS.md | 43 + R/aigra-api-keys.R |only R/aigra-api.R | 17 R/aigra-dataframe-input.R |only R/aigra-diagram-language.R | 2 R/aigra-diagram-translation.R | 2 R/aigra-generate-from-data.R |only R/aigra-imports.R |only R/aigra-multimodal-workflow.R | 12 R/aigra-read-template.R |only R/aigra-tabular-generate.R | 16 R/aigra-tabular.R | 6 R/aigra-user-api.R | 552 +++++++++++++------------ README.md | 287 +++++++----- inst/CITATION | 31 + man/aigra_backend_help.Rd | 2 man/aigra_generate_from_data.Rd |only man/aigra_generate_items.Rd | 128 +++-- man/aigra_generate_multimodal_tabular_items.Rd | 130 ++--- man/aigra_generate_tabular_items.Rd | 104 ++-- man/aigra_localize_diagram_prompts.Rd | 40 - man/aigra_parse_items.Rd | 58 +- man/aigra_parse_tabular_items.Rd | 56 +- man/aigra_read_template.Rd |only man/aigra_set_api_keys.Rd | 17 man/aigra_translate_diagram_prompts.Rd | 58 +- 29 files changed, 881 insertions(+), 739 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-08 0.2-13
2018-03-03 0.2-12
2017-06-12 0.2-8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-26 1.2
2020-02-22 1.1
2019-09-20 1.0
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.6.8 dated 2026-06-24 and 1.7.0 dated 2026-07-10
gpboost-1.6.8/gpboost/tests/testthat/_snaps |only gpboost-1.7.0/gpboost/DESCRIPTION | 9 gpboost-1.7.0/gpboost/MD5 | 104 gpboost-1.7.0/gpboost/NAMESPACE | 1 gpboost-1.7.0/gpboost/R/GPModel.R | 353 - gpboost-1.7.0/gpboost/R/gpb.Booster.R | 106 gpboost-1.7.0/gpboost/configure.ac | 2 gpboost-1.7.0/gpboost/demo/Grabit_and_mean-scale_regression.R | 4 gpboost-1.7.0/gpboost/man/GPModel.Rd | 5 gpboost-1.7.0/gpboost/man/GPModel_shared_params.Rd | 49 gpboost-1.7.0/gpboost/man/fit.GPModel.Rd | 44 gpboost-1.7.0/gpboost/man/fit.Rd | 44 gpboost-1.7.0/gpboost/man/fitGPModel.Rd | 49 gpboost-1.7.0/gpboost/man/get_aux_pars.GPModel.Rd | 6 gpboost-1.7.0/gpboost/man/get_aux_pars.Rd | 6 gpboost-1.7.0/gpboost/man/neg_log_likelihood.GPModel.Rd | 2 gpboost-1.7.0/gpboost/man/neg_log_likelihood.Rd | 2 gpboost-1.7.0/gpboost/man/predict.GPModel.Rd | 4 gpboost-1.7.0/gpboost/man/predict.gpb.Booster.Rd | 2 gpboost-1.7.0/gpboost/man/predict_training_data_random_effects.GPModel.Rd | 14 gpboost-1.7.0/gpboost/man/predict_training_data_random_effects.Rd | 6 gpboost-1.7.0/gpboost/man/set_optim_params.GPModel.Rd | 42 gpboost-1.7.0/gpboost/man/set_optim_params.Rd | 42 gpboost-1.7.0/gpboost/src/CG_utils.cpp | 52 gpboost-1.7.0/gpboost/src/Makevars.win | 2 gpboost-1.7.0/gpboost/src/Vecchia_utils.cpp | 69 gpboost-1.7.0/gpboost/src/boosting/gbdt.cpp | 19 gpboost-1.7.0/gpboost/src/c_api.cpp | 15 gpboost-1.7.0/gpboost/src/gpboost_R.cpp | 21 gpboost-1.7.0/gpboost/src/gpboost_R.h | 42 gpboost-1.7.0/gpboost/src/include/Eigen/src/SparseCore/TriangularSolver.h | 2 gpboost-1.7.0/gpboost/src/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h | 4 gpboost-1.7.0/gpboost/src/include/GPBoost/CG_utils.h | 8 gpboost-1.7.0/gpboost/src/include/GPBoost/Vecchia_utils.h | 3 gpboost-1.7.0/gpboost/src/include/GPBoost/cov_fcts.h | 98 gpboost-1.7.0/gpboost/src/include/GPBoost/likelihoods.h | 1148 ++-- gpboost-1.7.0/gpboost/src/include/GPBoost/optim_utils.h | 4 gpboost-1.7.0/gpboost/src/include/GPBoost/re_comp.h | 13 gpboost-1.7.0/gpboost/src/include/GPBoost/re_model.h | 77 gpboost-1.7.0/gpboost/src/include/GPBoost/re_model_template.h | 1191 +++- gpboost-1.7.0/gpboost/src/include/LBFGSpp/LineSearchBracketing.h | 2 gpboost-1.7.0/gpboost/src/include/LightGBM/c_api.h | 44 gpboost-1.7.0/gpboost/src/include/LightGBM/objective_function.h | 2 gpboost-1.7.0/gpboost/src/io/bin.cpp | 6 gpboost-1.7.0/gpboost/src/metric/regression_metric.hpp | 2 gpboost-1.7.0/gpboost/src/network/linkers_socket.cpp | 2 gpboost-1.7.0/gpboost/src/objective/regression_objective.hpp | 16 gpboost-1.7.0/gpboost/src/re_model.cpp | 311 - gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_combined_GP_random_effects.R | 133 gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_gaussian_process.R | 943 ++- gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_grouped_random_effects.R | 297 - gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_non_Gaussian_data.R | 2592 ++++++---- gpboost-1.7.0/gpboost/tests/testthat/test_z_GPBoost_algorithm.R | 230 gpboost-1.7.0/gpboost/tests/testthat/test_z_GPBoost_algorithm_non_Gaussian_data.R | 274 - 54 files changed, 5845 insertions(+), 2673 deletions(-)
Title: Network Analysis on the Norwegian Road Network
Description: A collection of GIS (Geographic Information System) functions in R, created for use in Statistics Norway. The functions are primarily related to network analysis on the Norwegian road network.
Author: Sindre Mikael Haugen [aut, cre]
Maintainer: Sindre Mikael Haugen <sindre.haugen@ssb.no>
Diff between GISSB versions 1.1 dated 2023-01-10 and 1.1.1 dated 2026-07-10
DESCRIPTION | 18 LICENSE | 4 MD5 | 70 NAMESPACE | 24 R/address_to_coords.R | 181 R/coords_to_google.R | 78 R/coords_to_node.R | 312 R/path_leaflet.R | 100 R/sampledata.R | 260 R/shortest_path_cppRouting.R | 182 R/shortest_path_igraph.R | 144 R/utils-pipe.R | 28 R/vegnett_to_R.R | 624 - README.md | 107 build/vignette.rds |binary inst/doc/GISSB_vignette.R | 386 - inst/doc/GISSB_vignette.Rmd | 626 - inst/doc/GISSB_vignette.html | 9650 ++++++++++++------------- man/address_to_coords.Rd | 62 man/coords_to_google.Rd | 50 man/coords_to_node.Rd | 104 man/path_leaflet.Rd | 62 man/pipe.Rd | 40 man/shortest_path_cppRouting.Rd | 102 man/shortest_path_igraph.Rd | 106 man/vegnett_to_R.Rd | 174 tests/testthat.R | 8 tests/testthat/helper_files.R | 32 tests/testthat/test-address_to_coords.R | 18 tests/testthat/test-coords_to_google.R | 22 tests/testthat/test-coords_to_node.R | 72 tests/testthat/test-path_leaflet.R | 54 tests/testthat/test-shortest_path_cppRouting.R | 66 tests/testthat/test-shortest_path_igraph.R | 94 tests/testthat/test-vegnett_to_R.R | 62 vignettes/GISSB_vignette.Rmd | 626 - 36 files changed, 7281 insertions(+), 7267 deletions(-)
Title: Flexible Bayes Factor Testing of Scientific Expectations
Description: Implementation of default Bayes factors
for testing statistical hypotheses under various statistical models. The package is
intended for applied quantitative researchers in the
social and behavioral sciences, medical research,
and related fields. The Bayes factor tests can be
executed for statistical models such as
univariate and multivariate normal linear models,
correlation analysis, generalized linear models, special cases of
linear mixed models, survival models, relational
event models. Parameters that can be tested are
location parameters (e.g., group means, regression coefficients),
variances (e.g., group variances), and measures of
association (e.g,. polychoric/polyserial/biserial/tetrachoric/product
moments correlations), among others.
Relevant references on the methodology The statistical underpinnings are
described in
O'Hagan (1995) <DOI:10.1111/j.2517-6161.1995.tb02017.x>,
Mulder and Xin (2022) <DOI:10.1080/00273171.2021.1904809>,
Mulder and Gelissen (2019) <D [...truncated...]
Author: Joris Mulder [aut, cre],
Caspar van Lissa [aut, ctb],
Donald R. Williams [aut, ctb],
Xin Gu [aut, ctb],
Anton Olsson-Collentine [aut, ctb],
Florian Boeing-Messing [aut, ctb],
Jean-Paul Fox [aut, ctb],
Janosch Menke [ctb],
Robbie van Aert [ctb],
Barry [...truncated...]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between BFpack versions 1.6.0 dated 2026-04-13 and 1.6.1 dated 2026-07-10
BFpack-1.6.0/BFpack/inst/doc/vignette_BFpack.R |only BFpack-1.6.0/BFpack/inst/doc/vignette_BFpack.Rmd |only BFpack-1.6.0/BFpack/inst/doc/vignette_BFpack.html |only BFpack-1.6.0/BFpack/vignettes/vignette_BFpack.Rmd |only BFpack-1.6.1/BFpack/DESCRIPTION | 8 +- BFpack-1.6.1/BFpack/MD5 | 33 +++++++--- BFpack-1.6.1/BFpack/NAMESPACE | 2 BFpack-1.6.1/BFpack/NEWS.md | 5 + BFpack-1.6.1/BFpack/R/BF.remstimate.R |only BFpack-1.6.1/BFpack/R/get_estimates_unique_to_BFpack.R | 10 +++ BFpack-1.6.1/BFpack/build/vignette.rds |binary BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_correlation.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_correlation.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_correlation.html |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_ergm.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_ergm.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_ergm.html |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_general.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_general.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_general.html |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_regression.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_regression.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_regression.html |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack.R |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack.html |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_correlation.Rmd |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_ergm.Rmd |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_general.Rmd |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_regression.Rmd |only 29 files changed, 45 insertions(+), 13 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-27 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-19 1.1-13
2022-03-04 1.1-11
2022-01-11 1.1-10
2021-03-01 1.1-9.1
2020-05-15 1.1-9
2018-04-28 1.1-8
2017-02-02 1.1-7
2016-05-03 1.1-5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-17 2.3.3
2025-06-11 2.3.2
2025-01-27 2.3.1
2024-10-28 2.3.0
2024-08-24 2.2.2
2023-09-10 2.2.1
2023-04-27 2.2.0
2022-07-18 2.0.1
2022-02-03 2.0.0
2021-05-15 1.1.0
2018-03-06 1.0.6
2018-03-06 1.0.7
2017-11-08 1.0.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-04-17 0.1-10
2021-05-27 0.1-9
2021-05-13 0.1-8
2019-03-29 0.1-7
2016-03-21 0.1-6
2016-03-11 0.1-5
2014-08-11 0.1-2
2014-01-31 0.0-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-11 2.0.0.1
2021-08-03 2.0.0.0
2021-07-16 1.9.0.0
2021-05-28 1.8.0.0
2021-01-24 1.7.0.0
2020-12-03 1.6.0.0
2020-09-17 1.5.0.0
2020-07-27 1.4.0.0
2020-06-30 1.3.0.0
2020-04-01 1.2.0.0
2019-12-01 1.1.0.0
2019-09-03 1.0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-28 1.2.0.0
2019-09-02 1.1.0.0
2019-08-28 1.0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-05 3.2
2017-08-15 3.1
2017-07-28 3.0
2017-06-30 2.0
2017-03-18 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-20 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-09 0.5.3
2017-03-12 0.5.2
2016-10-23 0.5.1
2016-10-22 0.5
2016-10-15 0.4.3
2016-10-04 0.4.2
2016-09-21 0.4.1
2016-09-11 0.4
2016-07-01 0.3
2016-01-27 0.2
2015-10-01 0.1.1
2015-08-18 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-06-10 0.3.4
2025-12-06 0.3.3
2025-10-10 0.3.2
2025-06-11 0.3.1
2025-04-16 0.3.0
2025-01-23 0.2.0
2024-11-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-08-09 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-04 1.1.0
2024-04-04 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-01 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-25 1.4.0
2024-02-07 1.3.0
2022-05-25 1.2.0
2022-01-07 1.1.0
2021-11-26 0.9.0
2021-09-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-31 1.0.0
2022-06-27 0.3.0
2021-09-21 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-26 0.3.0
2023-01-24 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-25 1.0.1
2013-12-17 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-29 1.0
Title: Applies Display Metadata to Analysis Results Datasets
Description: Creates a framework to store and apply display metadata to
Analysis Results Datasets (ARDs). The use of 'tfrmt' allows users to
define table format and styling without the data, and later apply the
format to the data.
Author: Alanah Jonas [aut, cre],
Becca Krouse [aut],
Christina Fillmore [aut] ,
Ellis Hughes [aut] ,
Karima Ahmad [aut] ,
Shannon Haughton [aut],
Dragoș Moldovan-Gruenfeld [aut],
GlaxoSmithKline Research & Development Limited [cph, fnd],
Atorus Research LLC [ [...truncated...]
Maintainer: Alanah Jonas <alanah.x.jonas@gsk.com>
Diff between tfrmt versions 0.3.0 dated 2026-01-24 and 0.4.0 dated 2026-07-10
tfrmt-0.3.0/tfrmt/tests/testthat/helper_transform_gt_html.R |only tfrmt-0.3.0/tfrmt/tests/testthat/test-check_order_vars.R |only tfrmt-0.4.0/tfrmt/DESCRIPTION | 22 tfrmt-0.4.0/tfrmt/MD5 | 254 tfrmt-0.4.0/tfrmt/NAMESPACE | 530 - tfrmt-0.4.0/tfrmt/NEWS.md | 221 tfrmt-0.4.0/tfrmt/R/JSON.R | 939 +- tfrmt-0.4.0/tfrmt/R/apply_col_plan.R | 862 +- tfrmt-0.4.0/tfrmt/R/apply_col_style_plan.R | 764 +- tfrmt-0.4.0/tfrmt/R/apply_footnote_meta.R | 520 - tfrmt-0.4.0/tfrmt/R/apply_footnote_plan.R | 394 - tfrmt-0.4.0/tfrmt/R/apply_frmt_methods.R | 696 +- tfrmt-0.4.0/tfrmt/R/apply_page_plan.R | 795 +- tfrmt-0.4.0/tfrmt/R/apply_row_grp_plan.R | 801 +- tfrmt-0.4.0/tfrmt/R/apply_table_frmt_plan.R | 354 - tfrmt-0.4.0/tfrmt/R/apply_tfrmt.R | 1088 +-- tfrmt-0.4.0/tfrmt/R/big_n.R | 508 - tfrmt-0.4.0/tfrmt/R/body_plan.R | 260 tfrmt-0.4.0/tfrmt/R/col_plan.R | 526 - tfrmt-0.4.0/tfrmt/R/col_style_plan.R | 344 - tfrmt-0.4.0/tfrmt/R/data.R | 148 tfrmt-0.4.0/tfrmt/R/display_insights.R | 478 - tfrmt-0.4.0/tfrmt/R/eval_tidyselect.R | 74 tfrmt-0.4.0/tfrmt/R/extract_data.R |only tfrmt-0.4.0/tfrmt/R/footnote_plan.R | 231 tfrmt-0.4.0/tfrmt/R/frmt_plans.R | 466 - tfrmt-0.4.0/tfrmt/R/frmt_utils.R | 792 +- tfrmt-0.4.0/tfrmt/R/mock_tbl.R | 596 - tfrmt-0.4.0/tfrmt/R/page_plan.R | 256 tfrmt-0.4.0/tfrmt/R/prep_card.R | 966 +-- tfrmt-0.4.0/tfrmt/R/print_to_ggplot.R | 404 - tfrmt-0.4.0/tfrmt/R/print_to_gt.R | 1060 +-- tfrmt-0.4.0/tfrmt/R/row_group_plan.R | 202 tfrmt-0.4.0/tfrmt/R/shuffle_card.R | 806 +- tfrmt-0.4.0/tfrmt/R/struct_utils.R | 332 - tfrmt-0.4.0/tfrmt/R/tfrmt.R | 978 +-- tfrmt-0.4.0/tfrmt/R/tfrmt_checks.R | 628 - tfrmt-0.4.0/tfrmt/R/tfrmt_layer.R | 601 + tfrmt-0.4.0/tfrmt/R/tfrmt_n_pct.R | 152 tfrmt-0.4.0/tfrmt/R/tfrmt_sigdig.R | 606 - tfrmt-0.4.0/tfrmt/R/theme_element.R | 238 tfrmt-0.4.0/tfrmt/R/utils-pipe.R | 32 tfrmt-0.4.0/tfrmt/R/utils_cards.R |only tfrmt-0.4.0/tfrmt/R/zzz.R | 14 tfrmt-0.4.0/tfrmt/README.md | 230 tfrmt-0.4.0/tfrmt/inst/WORDLIST | 114 tfrmt-0.4.0/tfrmt/inst/create_json_example_tfrmts.R | 374 - tfrmt-0.4.0/tfrmt/inst/json_examples/tfrmt_ae.json | 246 tfrmt-0.4.0/tfrmt/inst/json_examples/tfrmt_demog.json | 328 - tfrmt-0.4.0/tfrmt/inst/json_examples/tfrmt_efficacy.json | 410 - tfrmt-0.4.0/tfrmt/man/apply_frmt.Rd | 130 tfrmt-0.4.0/tfrmt/man/as_json.Rd | 42 tfrmt-0.4.0/tfrmt/man/big_n_structure.Rd | 66 tfrmt-0.4.0/tfrmt/man/body_plan.Rd | 80 tfrmt-0.4.0/tfrmt/man/cleaned_data_to_gt.Rd | 68 tfrmt-0.4.0/tfrmt/man/col_plan.Rd | 256 tfrmt-0.4.0/tfrmt/man/col_style_plan.Rd | 68 tfrmt-0.4.0/tfrmt/man/data_ae.Rd | 54 tfrmt-0.4.0/tfrmt/man/data_demog.Rd | 54 tfrmt-0.4.0/tfrmt/man/data_efficacy.Rd | 52 tfrmt-0.4.0/tfrmt/man/data_labs.Rd | 58 tfrmt-0.4.0/tfrmt/man/display_row_frmts.Rd | 100 tfrmt-0.4.0/tfrmt/man/display_val_frmts.Rd | 100 tfrmt-0.4.0/tfrmt/man/element_block.Rd | 82 tfrmt-0.4.0/tfrmt/man/element_row_grp_loc.Rd | 120 tfrmt-0.4.0/tfrmt/man/extract_data.Rd |only tfrmt-0.4.0/tfrmt/man/footnote_plan.Rd | 85 tfrmt-0.4.0/tfrmt/man/footnote_structure.Rd | 90 tfrmt-0.4.0/tfrmt/man/frmt.Rd | 226 tfrmt-0.4.0/tfrmt/man/frmt_structure.Rd | 110 tfrmt-0.4.0/tfrmt/man/frmt_utils.Rd | 122 tfrmt-0.4.0/tfrmt/man/json_to_tfrmt.Rd | 36 tfrmt-0.4.0/tfrmt/man/layer_tfrmt.Rd | 88 tfrmt-0.4.0/tfrmt/man/make_mock_data.Rd | 78 tfrmt-0.4.0/tfrmt/man/page_plan.Rd | 148 tfrmt-0.4.0/tfrmt/man/page_structure.Rd | 58 tfrmt-0.4.0/tfrmt/man/param_set.Rd | 82 tfrmt-0.4.0/tfrmt/man/pipe.Rd | 40 tfrmt-0.4.0/tfrmt/man/prep_big_n.Rd | 98 tfrmt-0.4.0/tfrmt/man/prep_combine_vars.Rd | 106 tfrmt-0.4.0/tfrmt/man/prep_hierarchical_fill.Rd | 144 tfrmt-0.4.0/tfrmt/man/prep_label.Rd | 64 tfrmt-0.4.0/tfrmt/man/print_mock_gt.Rd | 132 tfrmt-0.4.0/tfrmt/man/print_to_ggplot.Rd | 94 tfrmt-0.4.0/tfrmt/man/print_to_gt.Rd | 112 tfrmt-0.4.0/tfrmt/man/reset_component.Rd |only tfrmt-0.4.0/tfrmt/man/row_grp_plan.Rd | 92 tfrmt-0.4.0/tfrmt/man/row_grp_structure.Rd | 74 tfrmt-0.4.0/tfrmt/man/shuffle_card.Rd | 118 tfrmt-0.4.0/tfrmt/man/tfrmt.Rd | 428 - tfrmt-0.4.0/tfrmt/man/tfrmt_n_pct.Rd | 90 tfrmt-0.4.0/tfrmt/man/tfrmt_sigdig.Rd | 206 tfrmt-0.4.0/tfrmt/man/tfrmt_to_json.Rd | 56 tfrmt-0.4.0/tfrmt/man/theme_element.Rd | 146 tfrmt-0.4.0/tfrmt/man/update_group.Rd | 84 tfrmt-0.4.0/tfrmt/tests/testthat.R | 8 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/JSON.md | 12 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/apply_col_plan.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/apply_tfrmt.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/big_n.md | 20 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/helper-strip_env_label.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/make_mock_data.md | 2 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/prep_card.md | 11 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/print_to_gt.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/shuffle_card.md | 44 tfrmt-0.4.0/tfrmt/tests/testthat/helper-strip_env_label.R |only tfrmt-0.4.0/tfrmt/tests/testthat/helper-transform_gt_html.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-JSON.R | 1372 ++-- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_col_plan.R | 847 ++ tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_footnote_meta.R | 914 +- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_footnote_plan.R | 664 +- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_frmt.R | 1462 ++-- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_page_plan.R | 2337 +++---- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_row_grp_plan.R | 2242 +++---- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_tfrmt.R | 511 - tfrmt-0.4.0/tfrmt/tests/testthat/test-big_n.R | 3168 ++++----- tfrmt-0.4.0/tfrmt/tests/testthat/test-col_plan.R | 3178 +++++----- tfrmt-0.4.0/tfrmt/tests/testthat/test-col_style_structure.R | 1768 ++--- tfrmt-0.4.0/tfrmt/tests/testthat/test-display_insights.R | 318 - tfrmt-0.4.0/tfrmt/tests/testthat/test-expr_to_filter.R | 174 tfrmt-0.4.0/tfrmt/tests/testthat/test-extract_data.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-footnote_plan.R | 350 - tfrmt-0.4.0/tfrmt/tests/testthat/test-helper-strip_env_label.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-make_mock_data.R | 1532 ++-- tfrmt-0.4.0/tfrmt/tests/testthat/test-mrkdown_labels.R | 440 - tfrmt-0.4.0/tfrmt/tests/testthat/test-prep_card.R | 2168 +++--- tfrmt-0.4.0/tfrmt/tests/testthat/test-print_to_gt.R | 910 ++ tfrmt-0.4.0/tfrmt/tests/testthat/test-quo_get.R | 236 tfrmt-0.4.0/tfrmt/tests/testthat/test-reset_component.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-shuffle_card.R | 1224 ++- tfrmt-0.4.0/tfrmt/tests/testthat/test-tfrmt_checks.R | 238 tfrmt-0.4.0/tfrmt/tests/testthat/test-tfrmt_n_pct.R | 126 tfrmt-0.4.0/tfrmt/tests/testthat/test-tfrmt_sigdig.R | 707 +- tfrmt-0.4.0/tfrmt/tests/testthat/test-utils_cards.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-utils_tfrmt.R | 906 +- tfrmt-0.4.0/tfrmt/tests/testthat/test_print_to_ggplot.R | 448 - 136 files changed, 28279 insertions(+), 26235 deletions(-)
Title: R Analyzer for Large-Scale Assessments
Description: Download, prepare and analyze data from large-scale assessments and
surveys with complex sampling and assessment design (see 'Rutkowski',
2010 <doi:10.3102/0013189X10363170>). Such studies are, for example,
international assessments like 'TIMSS', 'PIRLS' and 'PISA'. A graphical
interface is available for the non-technical user.The package includes
functions to covert the original data from 'SPSS' into 'R' data sets
keeping the user-defined missing values, merge data from different
respondents and/or countries, generate variable dictionaries, modify
data, produce descriptive statistics (percentages, means, percentiles,
benchmarks) and multivariate statistics (correlations, linear
regression, binary logistic regression). The number of supported
studies and analysis types increases with every next release.
For a general presentation of the package, see 'Mirazchiyski', 2021a
(<doi:10.1186/s40536-021-00114-4>). For detailed technical aspects of
the package, see 'Mirazchiyski', 2 [...truncated...]
Author: Plamen V. Mirazchiyski [aut, cre]
Maintainer: Plamen V. Mirazchiyski <plamen.mirazchiyski@gmail.com>
Diff between RALSA versions 1.6.6 dated 2026-04-16 and 1.7.0 dated 2026-07-10
DESCRIPTION | 18 MD5 | 46 NAMESPACE | 2 NEWS.md | 12 R/RALSA.r | 2 R/common.r | 7419 ++++++++-------- R/lsa.bench.r | 12 R/lsa.bin.log.reg.r | 12 R/lsa.convert.data.r | 168 R/lsa.corr.r | 184 R/lsa.crosstabs.r | 758 - R/lsa.data.diag.r | 389 R/lsa.lin.reg.r | 16 R/lsa.merge.data.r | 446 R/lsa.pcts.means.r | 32 R/lsa.prctls.r | 32 R/lsa.quant.reg.r |only R/lsa.vars.dict.r | 157 R/zzz.r | 3 inst/shiny/GUI/server.r |22119 +++++++++++++++++++++++++----------------------- inst/shiny/GUI/ui.r | 5394 ++++++----- man/RALSA.Rd | 1 man/lsa.crosstabs.Rd | 11 man/lsa.lin.reg.Rd | 4 man/lsa.quant.reg.Rd |only 25 files changed, 19350 insertions(+), 17887 deletions(-)
Title: A Native Lazy Analytical Backend for MongoDB
Description: Provides a disciplined, lazy subset of 'dplyr' semantics for
MongoDB aggregation pipelines. Queries remain lazy until collect() and
compile into MongoDB-native aggregation stages.
Author: Paolo Bosetti [aut, cre]
Maintainer: Paolo Bosetti <paolo.bosetti@unitn.it>
Diff between mdbplyr versions 0.4.0 dated 2026-06-25 and 0.4.1 dated 2026-07-10
DESCRIPTION | 6 - MD5 | 20 +++--- NEWS.md | 25 +++++++ R/compile-pipeline.R | 4 - R/translate-expr.R | 82 ++++++++++++++++++++++--- R/verbs-nested.R | 52 ++++++++++----- tests/testthat/helper-mock.R | 26 +++++++ tests/testthat/test-compile-pipeline.R | 15 ++++ tests/testthat/test-semantics-missing-fields.R | 44 +++++++++++++ tests/testthat/test-semantics-nested.R | 28 ++++++++ tests/testthat/test-translate-expr.R | 35 ++++++++-- 11 files changed, 288 insertions(+), 49 deletions(-)
Title: Composite Indicators Functions
Description: A collection of functions to calculate Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps, as described in OECD Handbook on constructing composite indicators: methodology and user guide, 2008, 'Vidoli' and 'Fusco' and 'Mazziotta' <doi:10.1007/s11205-014-0710-y>, 'Mazziotta' and 'Pareto' (2016) <doi:10.1007/s11205-015-0998-2>, 'Van Puyenbroeck and 'Rogge' <doi:10.1016/j.ejor.2016.07.038> and other authors.
Author: Francesco Vidoli [aut, cre],
Elisa Fusco [aut]
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Diff between Compind versions 3.5 dated 2026-07-02 and 3.6 dated 2026-07-10
Compind-3.5/Compind/data/desktop.ini |only Compind-3.5/Compind/desktop.ini |only Compind-3.5/Compind/inst/desktop.ini |only Compind-3.5/Compind/vignettes/desktop.ini |only Compind-3.6/Compind/DESCRIPTION | 8 ++++---- Compind-3.6/Compind/MD5 | 12 ++++-------- Compind-3.6/Compind/NEWS | 2 +- Compind-3.6/Compind/inst/doc/Compind_vignette.pdf |binary Compind-3.6/Compind/man/ci_rbod_constr_bad.Rd | 16 ++++++++-------- 9 files changed, 17 insertions(+), 21 deletions(-)
Title: Augments 'ASReml-R' in Fitting Mixed Models and Packages
Generally in Exploring Prediction Differences
Description: Assists in automating the selection of terms to include in mixed models when
'asreml' is used to fit the models. Procedures are available for choosing models that
conform to the hierarchy or marginality principle, for fitting and choosing between
two-dimensional spatial models using correlation, natural cubic smoothing spline and
P-spline models. A history of the fitting of a sequence of models is kept in a data frame.
Also used to compute functions and contrasts of, to investigate differences between and
to plot predictions obtained using any model fitting function. The content falls into
the following natural groupings: (i) Data, (ii) Model modification functions, (iii) Model
selection and description functions, (iv) Model diagnostics and simulation functions,
(v) Prediction production and presentation functions, (vi) Response transformation
functions, (vii) Object manipulation functions, and (viii) Miscellaneous functions
(for further details see 'asremlPlus-package' in help). The [...truncated...]
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between asremlPlus versions 4.4.58 dated 2026-04-12 and 4.4.63 dated 2026-07-10
asremlPlus-4.4.58/asremlPlus/R/alldiffs.v5.r |only asremlPlus-4.4.63/asremlPlus/DESCRIPTION | 8 asremlPlus-4.4.63/asremlPlus/MD5 | 78 ++-- asremlPlus-4.4.63/asremlPlus/NAMESPACE | 3 asremlPlus-4.4.63/asremlPlus/R/LSDfuncs.v1.r |only asremlPlus-4.4.63/asremlPlus/R/LSDutilities.R | 30 + asremlPlus-4.4.63/asremlPlus/R/S3methodsDeprecations.r | 1 asremlPlus-4.4.63/asremlPlus/R/alldiffs.findLSD.v1.r | 22 - asremlPlus-4.4.63/asremlPlus/R/alldiffs.v6.r |only asremlPlus-4.4.63/asremlPlus/R/estimateV.v3.R | 131 +++---- asremlPlus-4.4.63/asremlPlus/R/pairTrans.r | 59 +-- asremlPlus-4.4.63/asremlPlus/R/psplineUtilities.v2.R | 6 asremlPlus-4.4.63/asremlPlus/R/reml4.v13.r | 14 asremlPlus-4.4.63/asremlPlus/R/spatial.funcs.v11.r | 58 +-- asremlPlus-4.4.63/asremlPlus/R/spatial.utilities.v4.r | 16 asremlPlus-4.4.63/asremlPlus/build/partial.rdb |binary asremlPlus-4.4.63/asremlPlus/build/vignette.rds |binary asremlPlus-4.4.63/asremlPlus/inst/NEWS.Rd | 26 + asremlPlus-4.4.63/asremlPlus/inst/doc/LadybirdEMMs.asreml.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/LadybirdEMMs.lm.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/Wheat.analysis.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/Wheat.infoCriteria.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/WheatSpatialModels.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/asremlPlus-manual.pdf |binary asremlPlus-4.4.63/asremlPlus/man/addBacktransforms.alldiffs.Rd | 25 + asremlPlus-4.4.63/asremlPlus/man/addPairwiseLetters.alldiffs.Rd |only asremlPlus-4.4.63/asremlPlus/man/allDifferences.data.frame.Rd | 12 asremlPlus-4.4.63/asremlPlus/man/asremlPlus-package.Rd | 4 asremlPlus-4.4.63/asremlPlus/man/exploreLSDs.alldiffs.Rd | 5 asremlPlus-4.4.63/asremlPlus/man/pairdiffsTransform.alldiffs.Rd | 7 asremlPlus-4.4.63/asremlPlus/man/predictPlus.asreml.Rd | 18 asremlPlus-4.4.63/asremlPlus/man/predictPresent.asreml.Rd | 9 asremlPlus-4.4.63/asremlPlus/man/ratioTransform.alldiffs.Rd | 5 asremlPlus-4.4.63/asremlPlus/man/renewClassify.alldiffs.Rd | 3 asremlPlus-4.4.63/asremlPlus/tests/testthat/data/diffs.834.13.rda |only asremlPlus-4.4.63/asremlPlus/tests/testthat/test42EstimateV.r | 131 +++++++ asremlPlus-4.4.63/asremlPlus/tests/testthat/test42Selection.r | 5 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42Simulate.r | 2 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42SpatialModels.r | 6 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42WheatSpatialVignette.r | 4 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42WheatVignette.r | 2 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42alldiffsasr.r | 181 +++++++++- asremlPlus-4.4.63/asremlPlus/tests/testthat/testthat-problems.rds |only 43 files changed, 638 insertions(+), 233 deletions(-)
Title: Record Linkage for Public Health Surveillance
Description: Record linkage for public health surveillance datasets using either
the Fellegi-Sunter probabilistic framework (via reclin2) or deterministic
exact-key matching. Provides pre-linkage data quality auditing (preflight()),
Medicare number checksum validation (check_medicare()), blocking variable
construction (flock()), and the murmuration() linkage engine. murmuration()
expresses linkage as a single cohort-to-event concept (linking a linelist of
people to a dated stream of vaccination, hospitalisation, or case events within
a before/during/after time window), with the historical four-code taxonomy
(case-to-hospitalisation, vaccination-to-case, vaccination-to-hospitalisation,
vaccination-to-event) retained as deprecated aliases. Also provides linkage
weight distribution visualisation (murmuration_plot()) and threshold sensitivity
analysis (perch()) with annotated AIHW, WA Data Linkage Unit, and PHRN reference
benchmarks. perch() can be called standalone or triggered automatically
mid-linka [...truncated...]
Author: Nicolas Smoll [aut, cre]
Maintainer: Nicolas Smoll <nicolas.smoll@health.qld.gov.au>
Diff between starling versions 0.6.5 dated 2026-01-26 and 1.1.0 dated 2026-07-10
starling-0.6.5/starling/R/clean_the_nest.R |only starling-0.6.5/starling/R/homing.R |only starling-0.6.5/starling/R/molting.R |only starling-0.6.5/starling/R/plumage.R |only starling-0.6.5/starling/R/preening.R |only starling-0.6.5/starling/R/starling-package.R |only starling-0.6.5/starling/R/tweet.R |only starling-0.6.5/starling/build/partial.rdb |only starling-0.6.5/starling/data/dx_data.rda |only starling-0.6.5/starling/data/hosp_data.rda |only starling-0.6.5/starling/data/linelist_data.rda |only starling-0.6.5/starling/data/manifest_data.rda |only starling-0.6.5/starling/data/vax_data.rda |only starling-0.6.5/starling/inst/WORDLIST.R |only starling-0.6.5/starling/inst/doc/starling-workflow.R |only starling-0.6.5/starling/inst/doc/starling-workflow.Rmd |only starling-0.6.5/starling/inst/doc/starling-workflow.html |only starling-0.6.5/starling/man/calculate_age_if_missing.Rd |only starling-0.6.5/starling/man/clean_the_nest.Rd |only starling-0.6.5/starling/man/create_comprehensive_age_categories.Rd |only starling-0.6.5/starling/man/dx_data.Rd |only starling-0.6.5/starling/man/find_column_preening.Rd |only starling-0.6.5/starling/man/homing.Rd |only starling-0.6.5/starling/man/hosp_data.Rd |only starling-0.6.5/starling/man/linelist_data.Rd |only starling-0.6.5/starling/man/manifest_data.Rd |only starling-0.6.5/starling/man/molting.Rd |only starling-0.6.5/starling/man/plumage.Rd |only starling-0.6.5/starling/man/preening.Rd |only starling-0.6.5/starling/man/tweet.Rd |only starling-0.6.5/starling/man/vax_data.Rd |only starling-0.6.5/starling/vignettes/starling-workflow.Rmd |only starling-1.1.0/starling/DESCRIPTION | 67 starling-1.1.0/starling/LICENSE |only starling-1.1.0/starling/MD5 | 80 starling-1.1.0/starling/NAMESPACE | 63 starling-1.1.0/starling/R/check_medicare.R |only starling-1.1.0/starling/R/data.R | 244 - starling-1.1.0/starling/R/flock.R |only starling-1.1.0/starling/R/murmuration.R | 1807 ++++++---- starling-1.1.0/starling/R/murmuration_plot.R |only starling-1.1.0/starling/R/perch.R |only starling-1.1.0/starling/R/preflight.R |only starling-1.1.0/starling/R/starling.R |only starling-1.1.0/starling/build/vignette.rds |binary starling-1.1.0/starling/data/cases_notifiable.rda |only starling-1.1.0/starling/data/vax_air.rda |only starling-1.1.0/starling/inst/doc/linked-cohort.R |only starling-1.1.0/starling/inst/doc/linked-cohort.Rmd |only starling-1.1.0/starling/inst/doc/linked-cohort.html |only starling-1.1.0/starling/inst/doc/pre-linkage-quality.R |only starling-1.1.0/starling/inst/doc/pre-linkage-quality.Rmd |only starling-1.1.0/starling/inst/doc/pre-linkage-quality.html |only starling-1.1.0/starling/inst/doc/threshold-selection.R |only starling-1.1.0/starling/inst/doc/threshold-selection.Rmd |only starling-1.1.0/starling/inst/doc/threshold-selection.html |only starling-1.1.0/starling/inst/extdata |only starling-1.1.0/starling/man/cases_notifiable.Rd |only starling-1.1.0/starling/man/check_medicare.Rd |only starling-1.1.0/starling/man/flock.Rd |only starling-1.1.0/starling/man/murmuration.Rd | 333 + starling-1.1.0/starling/man/murmuration_plot.Rd |only starling-1.1.0/starling/man/perch.Rd |only starling-1.1.0/starling/man/preflight.Rd |only starling-1.1.0/starling/man/starling-package.Rd | 58 starling-1.1.0/starling/man/vax_air.Rd |only starling-1.1.0/starling/tests |only starling-1.1.0/starling/vignettes/linked-cohort.Rmd |only starling-1.1.0/starling/vignettes/pre-linkage-quality.Rmd |only starling-1.1.0/starling/vignettes/threshold-selection.Rmd |only 70 files changed, 1775 insertions(+), 877 deletions(-)
Title: Seasonal Adjustment with 'X-13' in 'JDemetra+' 3.x
Description: R Interface to 'JDemetra+' 3.x
(<https://github.com/jdemetra>) time series analysis software. It
offers full access to options and outputs of 'X-13', including
Reg-ARIMA modelling (automatic AutoRegressive Integrated Moving
Average (ARIMA) model with outlier detection and trading days
adjustment) and X-11 decomposition.
Author: Jean Palate [aut],
Alain Quartier-la-Tente [aut] ,
Tanguy Barthelemy [aut, cre, art],
Anna Smyk [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3x13 versions 3.7.1 dated 2026-03-11 and 3.8.0 dated 2026-07-10
rjd3x13-3.7.1/rjd3x13/R/udvar.R |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-api-3.7.1.jar |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-core-3.7.1.jar |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-protobuf-3.7.1.jar |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-r-3.7.1.jar |only rjd3x13-3.8.0/rjd3x13/DESCRIPTION | 27 rjd3x13-3.8.0/rjd3x13/MD5 | 65 - rjd3x13-3.8.0/rjd3x13/NAMESPACE | 14 rjd3x13-3.8.0/rjd3x13/NEWS.md | 50 rjd3x13-3.8.0/rjd3x13/R/deprecated.R | 40 rjd3x13-3.8.0/rjd3x13/R/print.R | 352 ++++-- rjd3x13-3.8.0/rjd3x13/R/regarima_generic.R | 19 rjd3x13-3.8.0/rjd3x13/R/regarima_outliers.R | 46 rjd3x13-3.8.0/rjd3x13/R/revisions.R | 52 rjd3x13-3.8.0/rjd3x13/R/rjd3x13-package.R |only rjd3x13-3.8.0/rjd3x13/R/set_x11_spec.R | 110 + rjd3x13-3.8.0/rjd3x13/R/utils.R | 2 rjd3x13-3.8.0/rjd3x13/R/x13.R | 563 ++++++---- rjd3x13-3.8.0/rjd3x13/R/x13_rslts.R | 5 rjd3x13-3.8.0/rjd3x13/R/x13_spec.R | 256 +++- rjd3x13-3.8.0/rjd3x13/R/zzz.R | 91 + rjd3x13-3.8.0/rjd3x13/README.md | 4 rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-api-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-core-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-protobuf-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-r-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/proto/x13.proto | 48 rjd3x13-3.8.0/rjd3x13/man/deprecated-rjd3x13.Rd | 2 rjd3x13-3.8.0/rjd3x13/man/get_x13_option.Rd |only rjd3x13-3.8.0/rjd3x13/man/refresh.Rd | 211 ++- rjd3x13-3.8.0/rjd3x13/man/regarima.Rd | 8 rjd3x13-3.8.0/rjd3x13/man/regarima_outliers.Rd | 2 rjd3x13-3.8.0/rjd3x13/man/rjd3x13-package.Rd |only rjd3x13-3.8.0/rjd3x13/man/x11.Rd | 2 rjd3x13-3.8.0/rjd3x13/man/x11_spec.Rd | 8 rjd3x13-3.8.0/rjd3x13/man/x13.Rd | 7 rjd3x13-3.8.0/rjd3x13/man/x13_dictionary.Rd | 5 rjd3x13-3.8.0/rjd3x13/man/x13_option.Rd |only rjd3x13-3.8.0/rjd3x13/man/x13_revisions.Rd | 5 rjd3x13-3.8.0/rjd3x13/man/x13_spec.Rd | 20 40 files changed, 1378 insertions(+), 636 deletions(-)
Title: Seasonal Adjustment with TRAMO-SEATS in 'JDemetra+' 3.x
Description: Interface to 'JDemetra+' 3.x (<https://github.com/jdemetra>)
time series analysis software. It offers full access to options and
outputs of 'TRAMO-SEATS' (Time series Regression with ARIMA noise,
Missing values and Outliers - Signal Extraction in ARIMA Time Series),
including 'TRAMO' modelling (ARIMA model with outlier detection and
trading days adjustment). ARIMA = AutoRegressive Integrated Moving Average.
Author: Jean Palate [aut],
Alain Quartier-la-Tente [aut] ,
Tanguy Barthelemy [aut, cre, art],
Anna Smyk [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3tramoseats versions 3.7.1 dated 2026-03-11 and 3.8.0 dated 2026-07-10
rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-api-3.7.1.jar |only rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-core-3.7.1.jar |only rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-protobuf-3.7.1.jar |only rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-r-3.7.1.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/DESCRIPTION | 24 rjd3tramoseats-3.8.0/rjd3tramoseats/MD5 | 72 rjd3tramoseats-3.8.0/rjd3tramoseats/NAMESPACE | 6 rjd3tramoseats-3.8.0/rjd3tramoseats/NEWS.md | 47 rjd3tramoseats-3.8.0/rjd3tramoseats/R/deprecated.R | 24 rjd3tramoseats-3.8.0/rjd3tramoseats/R/print.R | 205 ++ rjd3tramoseats-3.8.0/rjd3tramoseats/R/revisions.R | 47 rjd3tramoseats-3.8.0/rjd3tramoseats/R/rjd3tramoseats-package.R |only rjd3tramoseats-3.8.0/rjd3tramoseats/R/seats.R | 23 rjd3tramoseats-3.8.0/rjd3tramoseats/R/seats_spec.R | 55 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramo_generic.R | 18 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramo_outliers.R | 38 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramo_spec.R | 39 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramoseats.R | 721 +++++++--- rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramoseats_rslts.R | 17 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramoseats_spec.R | 208 ++ rjd3tramoseats-3.8.0/rjd3tramoseats/R/zzz.R | 79 - rjd3tramoseats-3.8.0/rjd3tramoseats/README.md | 51 rjd3tramoseats-3.8.0/rjd3tramoseats/inst/WORDLIST | 3 rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-api-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-core-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-protobuf-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-r-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/proto/tramoseats.proto | 3 rjd3tramoseats-3.8.0/rjd3tramoseats/man/get_tramoseats_option.Rd |only rjd3tramoseats-3.8.0/rjd3tramoseats/man/refresh.Rd | 263 ++- rjd3tramoseats-3.8.0/rjd3tramoseats/man/rjd3tramoseats-package.Rd |only rjd3tramoseats-3.8.0/rjd3tramoseats/man/seats_decompose.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/set_seats.Rd | 6 rjd3tramoseats-3.8.0/rjd3tramoseats/man/terror.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramo.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramo_forecast.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramo_outliers.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats.Rd | 4 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_dictionary.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_option.Rd |only rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_revisions.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_spec.Rd | 8 rjd3tramoseats-3.8.0/rjd3tramoseats/tests/spelling.R | 10 43 files changed, 1352 insertions(+), 633 deletions(-)
More information about rjd3tramoseats at CRAN
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Title: Generic Coordinate System Transformations Using 'PROJ'
Description: A wrapper around the generic coordinate transformation software 'PROJ'
that transforms coordinates from one coordinate reference system ('CRS')
to another. This includes cartographic projections as well as geodetic transformations. The intention is for this
package to be used by user-packages such as 'reproj', and that the older 'PROJ.4' and version 5
pathways be provided by the 'proj4' package.
Author: Michael D. Sumner [aut, cre] ,
Jeroen Ooms [ctb] ,
Simon Urbanek [cph, ctb] ,
Dewey Dunnington [ctb] ,
Anthony North [ctb]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between PROJ versions 0.6.0 dated 2025-04-02 and 0.7.0 dated 2026-07-10
DESCRIPTION | 15 ++++---- MD5 | 29 +++++++++------ NAMESPACE | 1 NEWS.md | 16 ++++++++ R/proj_factors.R |only R/proj_trans.R | 6 +++ README.md | 68 +++++++++++++++---------------------- build/vignette.rds |binary inst/doc/PROJ.html | 5 +- man/PROJ-package.Rd | 5 ++ man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/figures/README-xyz-1.png |only man/proj_factors.Rd |only src/C_proj_factors.c |only src/Makevars.ucrt | 2 - src/init.c | 2 + tests/testthat/test-proj_factors.R |only 18 files changed, 87 insertions(+), 62 deletions(-)
Title: Multimodal Access and Interactive Data Representation
Description: Provides accessible, interactive visualizations through the 'MAIDR'
(Multimodal Access and Interactive Data Representation) system. Converts
'ggplot2' and Base R plots into accessible HTML/SVG formats with keyboard
navigation, screen reader support, and 'sonification' capabilities. Supports
bar charts (simple, grouped, stacked), histograms, line plots, scatter plots,
box plots, violin plots, candlestick (OHLC) charts, heat maps,
density/smooth curves, faceted plots,
multi-panel layouts (including patchwork), and multi-layered plot combinations. Enables
data exploration for users with visual impairments through multiple sensory
modalities. For more details see the 'MAIDR' project
<https://maidr.ai/>.
Author: JooYoung Seo [aut, cph],
Niranjan Kalaiselvan [aut, cre]
Maintainer: Niranjan Kalaiselvan <nk46@illinois.edu>
Diff between maidr versions 0.3.0 dated 2026-04-01 and 0.4.0 dated 2026-07-10
maidr-0.3.0/maidr/inst/htmlwidgets/lib/maidr-3.59.0 |only maidr-0.3.0/maidr/tests/testthat/Rplots.pdf |only maidr-0.3.0/maidr/tools |only maidr-0.4.0/maidr/DESCRIPTION | 12 maidr-0.4.0/maidr/MD5 | 183 +-- maidr-0.4.0/maidr/NAMESPACE | 1 maidr-0.4.0/maidr/NEWS.md | 17 maidr-0.4.0/maidr/R/axes_utils.R |only maidr-0.4.0/maidr/R/base_r_adapter.R | 86 + maidr-0.4.0/maidr/R/base_r_barplot_layer_processor.R | 4 maidr-0.4.0/maidr/R/base_r_boxplot_layer_processor.R | 6 maidr-0.4.0/maidr/R/base_r_candlestick_layer_processor.R |only maidr-0.4.0/maidr/R/base_r_dodged_bar_layer_processor.R | 6 maidr-0.4.0/maidr/R/base_r_function_classification.R | 5 maidr-0.4.0/maidr/R/base_r_function_patching.R | 47 maidr-0.4.0/maidr/R/base_r_heatmap_layer_processor.R | 8 maidr-0.4.0/maidr/R/base_r_histogram_layer_processor.R | 4 maidr-0.4.0/maidr/R/base_r_line_layer_processor.R | 8 maidr-0.4.0/maidr/R/base_r_plot_orchestrator.R | 110 + maidr-0.4.0/maidr/R/base_r_processor_factory.R | 3 maidr-0.4.0/maidr/R/base_r_smooth_layer_processor.R | 6 maidr-0.4.0/maidr/R/base_r_stacked_bar_layer_processor.R | 8 maidr-0.4.0/maidr/R/base_r_unknown_layer_processor.R | 2 maidr-0.4.0/maidr/R/base_r_wrapper_exports.R | 13 maidr-0.4.0/maidr/R/ggplot2_adapter.R | 18 maidr-0.4.0/maidr/R/ggplot2_bar_layer_processor.R | 70 - maidr-0.4.0/maidr/R/ggplot2_boxplot_layer_processor.R | 12 maidr-0.4.0/maidr/R/ggplot2_candlestick_layer_processor.R |only maidr-0.4.0/maidr/R/ggplot2_dodged_bar_layer_processor.R | 4 maidr-0.4.0/maidr/R/ggplot2_facet_utils.R | 8 maidr-0.4.0/maidr/R/ggplot2_heatmap_layer_processor.R | 4 maidr-0.4.0/maidr/R/ggplot2_line_layer_processor.R | 262 ++++ maidr-0.4.0/maidr/R/ggplot2_patchwork_utils.R | 297 +++++ maidr-0.4.0/maidr/R/ggplot2_plot_orchestrator.R | 34 maidr-0.4.0/maidr/R/ggplot2_processor_factory.R | 3 maidr-0.4.0/maidr/R/ggplot2_stacked_bar_layer_processor.R | 6 maidr-0.4.0/maidr/R/ggplot2_system_init.R | 36 maidr-0.4.0/maidr/R/ggplot2_violin_layer_processor.R | 8 maidr-0.4.0/maidr/R/html_dependencies.R | 30 maidr-0.4.0/maidr/R/layer_processor.R | 21 maidr-0.4.0/maidr/R/maidr.R | 30 maidr-0.4.0/maidr/R/maidr_widget.R | 9 maidr-0.4.0/maidr/R/svg_utils.R | 556 +++++++++- maidr-0.4.0/maidr/README.md | 21 maidr-0.4.0/maidr/inst/COPYRIGHTS |only maidr-0.4.0/maidr/inst/doc/getting-started.R | 29 maidr-0.4.0/maidr/inst/doc/getting-started.Rmd | 51 maidr-0.4.0/maidr/inst/doc/getting-started.html | 170 +-- maidr-0.4.0/maidr/inst/doc/shiny-integration.html | 4 maidr-0.4.0/maidr/inst/examples/base_r_plot_types_example.R | 69 + maidr-0.4.0/maidr/inst/examples/ggplot2/candlestick.R |only maidr-0.4.0/maidr/inst/examples/ggplot2/candlestick_with_ma_volume.R |only maidr-0.4.0/maidr/inst/examples/ggplot2_all_plot_types_example.R | 93 + maidr-0.4.0/maidr/inst/htmlwidgets/lib/maidr-3.69.0 |only maidr-0.4.0/maidr/inst/htmlwidgets/maidr.yaml | 4 maidr-0.4.0/maidr/man/BaseRAdapter.Rd | 27 maidr-0.4.0/maidr/man/BaseRCandlestickLayerProcessor.Rd |only maidr-0.4.0/maidr/man/BaseRStackedBarLayerProcessor.Rd | 2 maidr-0.4.0/maidr/man/Ggplot2BarLayerProcessor.Rd | 22 maidr-0.4.0/maidr/man/Ggplot2CandlestickProcessor.Rd |only maidr-0.4.0/maidr/man/Ggplot2LineLayerProcessor.Rd | 120 ++ maidr-0.4.0/maidr/man/LayerProcessor.Rd | 8 maidr-0.4.0/maidr/man/adjust_chartseries_bracket.Rd |only maidr-0.4.0/maidr/man/as_axis_config.Rd |only maidr-0.4.0/maidr/man/attach_axis_format.Rd |only maidr-0.4.0/maidr/man/axes_utils.Rd |only maidr-0.4.0/maidr/man/base-r-wrappers.Rd | 7 maidr-0.4.0/maidr/man/build_axes.Rd |only maidr-0.4.0/maidr/man/collapse_lines_to_multiseries.Rd |only maidr-0.4.0/maidr/man/collect_candlestick_layers.Rd |only maidr-0.4.0/maidr/man/create_html_document.Rd | 5 maidr-0.4.0/maidr/man/create_maidr_html.Rd | 11 maidr-0.4.0/maidr/man/create_maidr_iframe.Rd | 6 maidr-0.4.0/maidr/man/create_standalone_html.Rd | 6 maidr-0.4.0/maidr/man/dot-maidr_chartseries_ta_warned.Rd |only maidr-0.4.0/maidr/man/embed_volume_into_candle_data.Rd |only maidr-0.4.0/maidr/man/extract_axis_label.Rd |only maidr-0.4.0/maidr/man/extract_body_grob_id.Rd |only maidr-0.4.0/maidr/man/extract_rect_index_from_id.Rd |only maidr-0.4.0/maidr/man/inject_candlestick_open_close.Rd |only maidr-0.4.0/maidr/man/is_volume_only_bar_panel.Rd |only maidr-0.4.0/maidr/man/maidr_html_dependencies.Rd | 24 maidr-0.4.0/maidr/man/maidr_responsive_dependency.Rd |only maidr-0.4.0/maidr/man/maidr_widget.Rd | 12 maidr-0.4.0/maidr/man/merge_candlestick_volume_panels.Rd |only maidr-0.4.0/maidr/man/merge_line_layers.Rd |only maidr-0.4.0/maidr/man/panel_has_layer_of_type.Rd |only maidr-0.4.0/maidr/man/panel_layer_of_type.Rd |only maidr-0.4.0/maidr/man/save_html.Rd | 9 maidr-0.4.0/maidr/man/show.Rd | 9 maidr-0.4.0/maidr/man/strip_chartseries_date_axis.Rd |only maidr-0.4.0/maidr/man/strip_chartseries_right_axis.Rd |only maidr-0.4.0/maidr/man/validate_axes.Rd |only maidr-0.4.0/maidr/man/warn_chartseries_ta_unsupported.Rd |only maidr-0.4.0/maidr/tests/testthat/test-adapters.R | 135 ++ maidr-0.4.0/maidr/tests/testthat/test-base-r-candlestick.R |only maidr-0.4.0/maidr/tests/testthat/test-base-r-heatmap-layer-processor.R | 24 maidr-0.4.0/maidr/tests/testthat/test-base-r-heatmap-processor.R | 20 maidr-0.4.0/maidr/tests/testthat/test-base-r-line-layer-processor.R | 40 maidr-0.4.0/maidr/tests/testthat/test-base-r-smooth-layer-processor.R | 16 maidr-0.4.0/maidr/tests/testthat/test-ggplot2-adapter-geom-ma.R |only maidr-0.4.0/maidr/tests/testthat/test-ggplot2-bar-layer-processor.R | 86 + maidr-0.4.0/maidr/tests/testthat/test-ggplot2-candlestick-layer-processor.R |only maidr-0.4.0/maidr/tests/testthat/test-ggplot2-candlestick-patchwork.R |only maidr-0.4.0/maidr/tests/testthat/test-ggplot2-heatmap-layer-processor.R | 8 maidr-0.4.0/maidr/tests/testthat/test-ggplot2-line-layer-processor.R | 178 ++- maidr-0.4.0/maidr/tests/testthat/test-ggplot2-violin-layer-processor.R | 14 maidr-0.4.0/maidr/tests/testthat/test-layer-processor.R | 4 maidr-0.4.0/maidr/tests/testthat/test-patchwork-utils.R | 8 maidr-0.4.0/maidr/tests/testthat/test-unknown-processors.R | 4 maidr-0.4.0/maidr/vignettes/getting-started.Rmd | 51 111 files changed, 2784 insertions(+), 450 deletions(-)
Title: Client for OGC API - Environmental Data Retrieval (EDR)
Description: A tidy R client for services implementing the OGC API -
Environmental Data Retrieval ('EDR') standard with JSON discovery and
'GeoJSON' or 'CoverageJSON' query responses. General purpose, but most
of its real-world use is against in-situ monitoring networks
(stream gauges, weather stations, snow and reservoir telemetry)
that expose their stations and time series as EDR collections.
Known working endpoints include the USGS waterdata OGC API and the
Western Water Datahub. Provides discovery, query, and parsing
helpers for the locations, items, position, area, cube, radius,
trajectory, and corridor query types. Returns 'CoverageJSON' as
tidy 'tibble' rows and 'GeoJSON' as 'sf' objects.
Author: Kyle Onda [aut, cre, cph]
Maintainer: Kyle Onda <konda@lincolninst.edu>
Diff between edr4r versions 0.1.0 dated 2026-06-18 and 0.1.1 dated 2026-07-10
edr4r-0.1.0/edr4r/inst/doc/wwdh-collections.Rmd |only edr4r-0.1.0/edr4r/inst/doc/wwdh-collections.html |only edr4r-0.1.0/edr4r/inst/doc/wwdh-http-guide.Rmd |only edr4r-0.1.0/edr4r/inst/doc/wwdh-http-guide.html |only edr4r-0.1.0/edr4r/man/edr_parameter_groups.Rd |only edr4r-0.1.0/edr4r/vignettes/getting-started-figs/prism-grid-1.png |only edr4r-0.1.0/edr4r/vignettes/wwdh-collections.Rmd |only edr4r-0.1.0/edr4r/vignettes/wwdh-http-guide.Rmd |only edr4r-0.1.1/edr4r/DESCRIPTION | 28 edr4r-0.1.1/edr4r/MD5 | 100 - edr4r-0.1.1/edr4r/NAMESPACE | 1 edr4r-0.1.1/edr4r/NEWS.md | 51 edr4r-0.1.1/edr4r/R/client.R | 58 edr4r-0.1.1/edr4r/R/discovery.R | 38 edr4r-0.1.1/edr4r/R/edr4r-package.R | 11 edr4r-0.1.1/edr4r/R/explore.R | 232 +-- edr4r-0.1.1/edr4r/R/map.R | 99 + edr4r-0.1.1/edr4r/R/parsers.R | 640 +++++++--- edr4r-0.1.1/edr4r/R/plot.R | 2 edr4r-0.1.1/edr4r/R/queries.R | 126 - edr4r-0.1.1/edr4r/R/request.R | 73 - edr4r-0.1.1/edr4r/R/viz-utils.R | 9 edr4r-0.1.1/edr4r/README.md | 133 +- edr4r-0.1.1/edr4r/build/vignette.rds |binary edr4r-0.1.1/edr4r/inst/doc/getting-started.R | 9 edr4r-0.1.1/edr4r/inst/doc/getting-started.Rmd | 135 -- edr4r-0.1.1/edr4r/inst/doc/getting-started.html | 291 ++-- edr4r-0.1.1/edr4r/man/covjson_to_tibble.Rd | 12 edr4r-0.1.1/edr4r/man/edr4r-package.Rd | 11 edr4r-0.1.1/edr4r/man/edr_area.Rd | 7 edr4r-0.1.1/edr4r/man/edr_client.Rd | 13 edr4r-0.1.1/edr4r/man/edr_corridor.Rd | 14 edr4r-0.1.1/edr4r/man/edr_cube.Rd | 7 edr4r-0.1.1/edr4r/man/edr_explore.Rd | 27 edr4r-0.1.1/edr4r/man/edr_items.Rd | 12 edr4r-0.1.1/edr4r/man/edr_location.Rd | 6 edr4r-0.1.1/edr4r/man/edr_locations.Rd | 7 edr4r-0.1.1/edr4r/man/edr_map.Rd | 7 edr4r-0.1.1/edr4r/man/edr_plot.Rd | 2 edr4r-0.1.1/edr4r/man/edr_position.Rd | 6 edr4r-0.1.1/edr4r/man/edr_radius.Rd | 9 edr4r-0.1.1/edr4r/man/edr_request.Rd | 6 edr4r-0.1.1/edr4r/man/edr_trajectory.Rd | 7 edr4r-0.1.1/edr4r/man/geojson_to_sf.Rd | 6 edr4r-0.1.1/edr4r/tests/testthat/fixtures/trajectory.covjson |only edr4r-0.1.1/edr4r/tests/testthat/helper-mock.R | 11 edr4r-0.1.1/edr4r/tests/testthat/test-client.R | 13 edr4r-0.1.1/edr4r/tests/testthat/test-discovery.R | 23 edr4r-0.1.1/edr4r/tests/testthat/test-explore.R | 288 +--- edr4r-0.1.1/edr4r/tests/testthat/test-map.R | 124 + edr4r-0.1.1/edr4r/tests/testthat/test-parsers.R | 318 ++++ edr4r-0.1.1/edr4r/tests/testthat/test-queries.R | 58 edr4r-0.1.1/edr4r/tests/testthat/test-query-building.R | 17 edr4r-0.1.1/edr4r/tests/testthat/test-request.R | 89 + edr4r-0.1.1/edr4r/tools |only edr4r-0.1.1/edr4r/vignettes/getting-started.Rmd | 135 -- 56 files changed, 1973 insertions(+), 1298 deletions(-)
Title: Dimension Reduction for Outlier Detection
Description: A dimension reduction technique for outlier detection. DOBIN: a Distance
based Outlier BasIs using Neighbours, constructs a set of basis vectors for outlier
detection. This is not an outlier detection method; rather it is a pre-processing
method for outlier detection. It brings outliers to the fore-front using fewer basis
vectors (Kandanaarachchi, Hyndman 2020) <doi:10.1080/10618600.2020.1807353>.
Author: Sevvandi Kandanaarachchi [aut, cre]
Maintainer: Sevvandi Kandanaarachchi <sevvandik@gmail.com>
Diff between dobin versions 1.0.4 dated 2022-08-25 and 1.0.5 dated 2026-07-10
DESCRIPTION | 10 +- MD5 | 14 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/dobin.R | 10 +- inst/doc/dobin.Rmd | 4 inst/doc/dobin.html | 247 ++++++++++++++++++++++++++-------------------------- vignettes/dobin.Rmd | 4 8 files changed, 148 insertions(+), 141 deletions(-)
Title: Utilizing Automated Text Analysis to Support Interpretation of
Narrative Feedback
Description: Combine topic modeling and sentiment analysis to identify individual students' gaps, and highlight their strengths and weaknesses across predefined competency domains and professional activities.
Author: Joyce Moonen - van Loon [aut, cre]
Maintainer: Joyce Moonen - van Loon <j.moonen@maastrichtuniversity.nl>
Diff between sumup versions 1.0.2 dated 2026-02-24 and 1.0.3 dated 2026-07-10
DESCRIPTION | 6 MD5 | 7 NEWS.md |only R/create_output.R | 420 +++++++++++++++++++++++++++--------------------------- R/run_sumup.R | 133 ++++++++--------- 5 files changed, 287 insertions(+), 279 deletions(-)
Title: Quantitative Analysis and Visualization of LUCC
Description: Tools for the analysis of land use and cover (LUC) time series. It
includes support for loading spatiotemporal raster data and synthesized
spatial plotting. Several LUC change (LUCC) metrics in regular or irregular
time intervals can be extracted and visualized through one- and multistep
sankey and chord diagrams. A complete intensity analysis according to
Aldwaik and Pontius (2012) <doi:10.1016/j.landurbplan.2012.02.010> is
implemented, including tools for the generation of standardized multilevel
output graphics.
Author: Reginal Exavier [aut, cre] ,
Peter Zeilhofer [aut]
Maintainer: Reginal Exavier <reginalexavier@rocketmail.com>
Diff between OpenLand versions 1.0.4 dated 2026-07-01 and 1.0.5 dated 2026-07-10
DESCRIPTION | 6 MD5 | 30 NEWS.md | 8 R/contingencyTable.R | 3 R/generalfunctions.R | 56 inst/doc/openland_vignette.R | 223 -- inst/doc/openland_vignette.Rmd | 1 inst/doc/openland_vignette.html | 2342 -------------------------- man/acc_changes.Rd | 3 man/contingencyTable.Rd | 3 man/dot-openland_try_download_and_load_rda.Rd | 9 man/summary_dir.Rd | 3 man/summary_map.Rd | 3 tests/testthat/Rplots.pdf |binary tests/testthat/test_generalfunctions.R | 2 vignettes/openland_vignette.Rmd | 1 16 files changed, 88 insertions(+), 2605 deletions(-)
Title: Plotting Tools for Anyone Working in Deep Time
Description: Extends the functionality of other plotting packages (notably 'ggplot2')
to help facilitate the plotting of data over long time intervals, including,
but not limited to, geological, evolutionary, and ecological data. The
primary goal of 'deeptime' is to enable users to add highly customizable
timescales to their visualizations. Other functions are also included to
assist with other areas of deep time visualization.
Author: William Gearty [aut, cre]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between deeptime versions 2.3.1 dated 2025-11-26 and 2.4.0 dated 2026-07-10
DESCRIPTION | 16 MD5 | 131 +- NAMESPACE | 3 NEWS.md | 24 R/coord_geo.R | 69 - R/coord_trans_xy.R | 79 - R/disparity_through_time.R | 15 R/geom_text_phylo.R | 269 +++++ README.md | 6 build/vignette.rds |binary inst/doc/coord.html | 9 inst/doc/coord_geo.R | 26 inst/doc/coord_geo.Rmd | 26 inst/doc/coord_geo.html | 40 inst/doc/geo.html | 75 - inst/doc/ggarrange2.html | 18 inst/doc/phylogenies.R | 50 + inst/doc/phylogenies.Rmd | 70 + inst/doc/phylogenies.html | 98 +- inst/doc/time.R | 32 inst/doc/time.Rmd | 32 inst/doc/time.html | 40 inst/doc/traits.html | 12 man/coord_geo.Rd | 33 man/coord_geo_polar.Rd | 6 man/coord_geo_radial.Rd | 4 man/coord_trans_flip.Rd | 4 man/coord_trans_xy.Rd | 12 man/deeptime-package.Rd | 57 - man/disparity_through_time.Rd | 16 man/eons.Rd | 2 man/epochs.Rd | 2 man/eras.Rd | 2 man/facet_grid_color.Rd | 318 +++--- man/facet_nested_color.Rd | 474 ++++------ man/facet_nested_wrap_color.Rd | 406 ++++---- man/facet_wrap_color.Rd | 10 man/fgdc_dict.Rd | 8 man/fgdc_names.Rd | 8 man/geo_pattern.Rd | 6 man/geom_points_range.Rd | 4 man/geom_text_clade.Rd |only man/geom_text_phylo.Rd | 4 man/get_scale_data.Rd | 2 man/grid.pattern_geo.Rd | 6 man/guide_geo.Rd | 6 man/panel.disparity.Rd | 10 man/periods.Rd | 2 man/scale_fill_geopattern.Rd | 6 man/stages.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/ggplot4/coord_geo/stacked-scales-on-left-right-new.svg |only tests/testthat/_snaps/ggplot4/coord_geo/stacked-scales-on-top-bottom-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-capped-axes-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-expansion-new.svg | 72 - tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-reflect-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-reverse-scales-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-without-expansion-new.svg | 70 - tests/testthat/_snaps/ggplot4/geom_text_phylo/geom-text-clade-annotation-new.svg |only tests/testthat/_snaps/ggplot4/geom_text_phylo/geom-text-clade-labels-new.svg |only tests/testthat/_snaps/ggplot4/geom_text_phylo/geom-text-clade-new.svg |only tests/testthat/test-coord_geo.R | 31 tests/testthat/test-coord_geo_radial.R | 4 tests/testthat/test-coord_trans_xy.R | 40 tests/testthat/test-disparity_through_time.R | 15 tests/testthat/test-geom_text_phylo.R | 63 + vignettes/coord_geo.Rmd | 26 vignettes/phylogenies-6.png |binary vignettes/phylogenies-7.png |only vignettes/phylogenies-8.png |only vignettes/phylogenies.Rmd | 70 + vignettes/time.Rmd | 32 72 files changed, 1849 insertions(+), 1124 deletions(-)
Title: Confidence Intervals Utilizing Uncertain Prior Information
Description: Computes a confidence interval for a specified linear combination of the
regression parameters in a linear regression model with iid normal errors
with known variance when there is uncertain prior information that a distinct
specified linear combination of the regression parameters takes a given
value. This confidence interval, found by numerical nonlinear constrained
optimization, has the required minimum coverage and utilizes this uncertain
prior information through desirable expected length properties.
This confidence interval has the following three practical applications.
Firstly, if the error variance has been accurately estimated from previous
data then it may be treated as being effectively known. Secondly, for
sufficiently large (dimension of the response vector) minus (dimension of
regression parameter vector), greater than or equal to 30 (say),
if we replace the assumed known value of the error variance by its usual
estimator in the formula for the confidence interval then [...truncated...]
Author: Paul Kabaila [aut, cre],
Rheanna Mainzer [aut],
Ayesha Perera [ctb]
Maintainer: Paul Kabaila <P.Kabaila@latrobe.edu.au>
Diff between ciuupi versions 1.2.3 dated 2024-06-18 and 1.2.4 dated 2026-07-10
DESCRIPTION | 10 +- MD5 | 10 +- R/optimize_b_s_given_lambda.R | 184 +++++++++++++++++++-------------------- R/optimize_knots_v1.R | 170 ++++++++++++++++++------------------ build/vignette.rds |binary inst/doc/description-ciuupi.html | 11 +- 6 files changed, 195 insertions(+), 190 deletions(-)
Title: A 'shiny' Package for Data Analysis
Description: Provides a 'shiny' application with a user-friendly interface
for interactive data analysis. It supports exploratory data analysis
through descriptive statistics, data visualization, statistical
tests (e.g., normality assessment), linear modeling, data
import, transformation and reporting. For more details see Shapiro and Wilk
(1965) <doi:10.2307/2333709>.
Author: Luis Gustavo Schuck [aut, cre]
Maintainer: Luis Gustavo Schuck <luisgustavoschuck@yahoo.com.br>
Diff between spada versions 0.1.6 dated 2026-06-11 and 0.1.7 dated 2026-07-10
DESCRIPTION | 8 MD5 | 93 ++--- NAMESPACE | 403 ++++++++++++------------ NEWS.md | 28 + R/config_module.R | 7 R/correlation_module.R | 14 R/descriptive_stats_module.R | 69 +++- R/exploratory_module.R | 1 R/insert_output_module.R | 42 -- R/lm_module.R | 204 +++++++++++- R/navbar_df_info_module.R | 35 +- R/normality_test_module.R | 32 - R/one_t_test_module.R |only R/output_module.R | 36 -- R/restore_session_module.R | 31 - R/sidebar_module.R | 50 ++- R/spada.R | 18 - R/spada_server.R | 7 R/spada_themes.R | 412 +++++++++++++------------ R/spada_ui.R | 17 - R/utils.R | 296 +++++++++++++---- R/z_test_module.R | 83 ++--- R/zzz.R | 1 README.md | 11 build/vignette.rds |binary inst/doc/spada.html | 26 - man/figures/data.png |binary man/figures/export.png |binary man/figures/highlights.png |binary man/figures/import.png |binary man/figures/logo.png |binary man/figures/metadata.png |binary man/figures/navbar_active_dataset.png |binary man/figures/overview.png |binary man/figures/spada_analysis_exploratory.png |binary man/figures/spada_config.png |binary man/figures/spada_data_metadata.png |binary man/figures/spada_data_overview.png |binary man/figures/spada_edit.png |binary man/figures/spada_home.png |binary man/figures/spada_home2.png |binary man/figures/spada_home3.png |binary man/figures/spada_output.png |binary man/figures/spada_output_exported.png |only man/spada.Rd | 48 +- tests/testthat.R | 24 - tests/testthat/test-descriptive_stats_module.R | 43 -- tests/testthat/test-lm_module.R | 43 ++ tests/testthat/test-one_t_test_module.R |only 49 files changed, 1255 insertions(+), 827 deletions(-)
Title: Efficient Savitzky-Golay Filtering
Description: Smoothing signals and computing their derivatives is a common
requirement in signal processing workflows. Savitzky-Golay filters are a
established method able to do both (Savitzky and Golay, 1964 <doi:10.1021/ac60214a047>).
This package implements one dimensional Savitzky-Golay filters that can be applied to
vectors and matrices (either row-wise or column-wise).
Vectorization and memory allocations have been profiled to reduce computational
fingerprint. Short filter lengths are implemented in the direct space, while
longer filters are implemented in frequency space, using a Fast Fourier
Transform (FFT).
Author: Sergio Oller Moreno [aut, cre] ,
Robert Gentleman [ctb, cph] ),
Ross Ihaka [ctb, cph] ),
Brian Ripley [ctb, cph] ),
Martin Maechler [ctb, cph] ),
Duncan Murdoch [ctb, cph] ),
Institute for Bioengineering of Catalonia [cph]
Maintainer: Sergio Oller Moreno <sergioller@gmail.com>
Diff between sgolay versions 1.0.3 dated 2023-04-05 and 1.0.4 dated 2026-07-10
DESCRIPTION | 12 ++--- MD5 | 8 +-- NEWS.md | 13 ++++++ R/sgolayfilt.R | 8 +++ inst/tests/runit.sgolayfilt.R | 91 ++++++++++++++++++++++++++++++++++++++++++ 5 files changed, 121 insertions(+), 11 deletions(-)
Title: 'DuckDB' High Throughput Sequencing File Formats Reader
Extension
Description: Bundles the 'duckhts' 'DuckDB' extension for reading High Throughput
Sequencing file formats with 'DuckDB'. The 'DuckDB' C extension API
<https://duckdb.org/docs/stable/clients/c/api> and its 'htslib' dependency are
compiled from vendored sources during package installation. James K Bonfield and co-authors (2021) <doi:10.1093/gigascience/giab007>. VariantKey / RegionKey support follows Nicola Asuni (2018) <doi:10.1101/473744>.
Author: Sounkou Mahamane Toure [aut, cre],
James K Bonfield, John Marshall,Petr Danecek ,Heng Li , Valeriu Ohan,
Andrew Whitwham,Thomas Keane , Robert M Davies [ctb] ,
Brent Pedersen [cph] ,
Giulio Genovese [cph] ,
Nicola Asuni [cph] ,
DuckDB C Extension API [...truncated...]
Maintainer: Sounkou Mahamane Toure <sounkoutoure@gmail.com>
Diff between Rduckhts versions 1.3.0-0.1.0 dated 2026-05-29 and 1.4.0-0.1.0 dated 2026-07-10
DESCRIPTION | 6 MD5 | 123 NAMESPACE | 4 NEWS.md | 21 R/convert_parquet.R |only R/duckhts.R | 161 inst/duckhts_extension/bam_bin_counts.c | 25 inst/duckhts_extension/bam_reader.c | 61 inst/duckhts_extension/bcf_reader.c | 4120 +++++++++++++--- inst/duckhts_extension/bcftools_norm_udf.c | 232 inst/duckhts_extension/bcftools_shim.c | 20 inst/duckhts_extension/duckdb_capi/duckdb.h | 1398 ++++- inst/duckhts_extension/duckdb_capi/duckdb_extension.h | 265 - inst/duckhts_extension/duckhts.c | 267 - inst/duckhts_extension/hts_meta_reader.c | 26 inst/duckhts_extension/include/bcftools_shim.h | 12 inst/duckhts_extension/include/duckhts_simd.h | 18 inst/duckhts_extension/include/duckhts_simd_internal.h | 33 inst/duckhts_extension/include/duckhts_simd_kernels.def | 2 inst/duckhts_extension/include/vep_parser.h | 4 inst/duckhts_extension/interval_udf.c | 48 inst/duckhts_extension/kmer_udf.c | 680 ++ inst/duckhts_extension/seq_reader.c | 51 inst/duckhts_extension/simd/duckhts_simd_avx2.c | 127 inst/duckhts_extension/simd/duckhts_simd_dispatch.c | 88 inst/duckhts_extension/simd/duckhts_simd_scalar.c | 77 inst/duckhts_extension/tabix_reader.c | 53 inst/duckhts_extension/vep_parser.c | 65 inst/extdata/bcf_format_type_clash.bcf |only inst/extdata/bcf_info_str_clash.bcf |only inst/extdata/bcf_info_type_clash.bcf |only inst/extdata/genotype_ploidy_edge_cases.vcf |only inst/extdata/malformed_bad_pos.vcf |only inst/extdata/phased_genotype_fields.vcf |only inst/extdata/samples_s1.txt |only inst/extdata/test_vep_tidy.vcf |only inst/extdata/tidy_chunk_boundary.vcf |only inst/extdata/vcfpp_manifest.tsv | 5 inst/function_catalog/functions.md | 61 inst/function_catalog/functions.tsv | 56 inst/function_catalog/functions.yaml | 195 inst/patches/duckdb_capi_strict_prototypes.patch | 94 inst/tinytest/test_basic.R | 66 inst/tinytest/test_bcf.R | 556 ++ inst/tinytest/test_bcf_regression.R | 198 inst/tinytest/test_bcftools_norm.R | 304 + inst/tinytest/test_cigar_utils.R | 33 inst/tinytest/test_convert_parquet.R |only inst/tinytest/test_integration.R | 15 inst/tinytest/test_seq_ops.R | 41 man/rduckhts_bam.Rd | 6 man/rduckhts_bam_convert_parquet.Rd |only man/rduckhts_bam_multi.Rd | 3 man/rduckhts_bcf.Rd | 11 man/rduckhts_bcf_convert_parquet.Rd |only man/rduckhts_bcf_multi.Rd | 3 man/rduckhts_bed.Rd | 6 man/rduckhts_bed_multi.Rd | 3 man/rduckhts_fasta.Rd | 6 man/rduckhts_fasta_multi.Rd | 3 man/rduckhts_fastq.Rd | 5 man/rduckhts_fastq_multi.Rd | 3 man/rduckhts_gff.Rd | 6 man/rduckhts_gff_convert_parquet.Rd |only man/rduckhts_gff_multi.Rd | 3 man/rduckhts_gtf.Rd | 6 man/rduckhts_gtf_multi.Rd | 3 man/rduckhts_tabix.Rd | 6 man/rduckhts_tabix_convert_parquet.Rd |only man/rduckhts_tabix_multi.Rd | 3 70 files changed, 8577 insertions(+), 1110 deletions(-)
Title: Higher-Level Interface of 'torch' Package to Auto-Train Neural
Networks
Description: Provides a higher-level interface to the 'torch' package for defining,
training, and fine-tuning neural networks through code generation.
The package supports several architectures, including feedforward
(multi-layer perceptron) and recurrent neural networks (RNN, LSTM,
GRU), while reducing boilerplate 'torch' code. Model training
methods also bridge to machine learning frameworks in R,
particularly the 'tidymodels' ecosystem, including 'parsnip' model
specifications, workflows, recipes, and tuning tools.
Author: Joshua Marie [aut, cre],
Antoine Soetewey [aut]
Maintainer: Joshua Marie <joshua.marie.k@gmail.com>
Diff between kindling versions 0.3.1 dated 2026-07-02 and 0.3.2 dated 2026-07-10
DESCRIPTION | 11 MD5 | 38 +- NEWS.md | 21 + R/act-fun.R | 69 ++- R/early_stop.R | 6 R/variable-imp.R | 2 README.md | 521 +---------------------------- inst/CITATION | 7 inst/doc/kindling.R | 136 ++++++- inst/doc/kindling.Rmd | 248 ++++++++++++- inst/doc/kindling.html | 288 +++++++++++++--- man/act_funs.Rd | 6 man/args.Rd | 4 man/early_stop.Rd | 4 man/figures/README-example-1.png |binary man/kindling.Rd | 2 tests/testthat/test-basemodel.R | 36 ++ tests/testthat/test-tune-workflows.R | 31 + tests/testthat/test-workflow-integration.R | 74 ++++ vignettes/kindling.Rmd | 248 ++++++++++++- 20 files changed, 1069 insertions(+), 683 deletions(-)
Title: Infer Cell-Cell Communication from Spatial Transcriptomics
Description: Identifies cell-cell communication hotspots in spatial
transcriptomics data using bivariate Local Moran's I statistics
on hexagonally binned cells. Provides functions for spatial
weighting, ligand-receptor pair filtering, hotspot detection,
and visualisation of sender-receiver cell-type interactions.
Author: Yunshun Chen [aut, cre],
Lei Qin [aut],
Lizhong Chen [aut]
Maintainer: Yunshun Chen <yuchen@wehi.edu.au>
Diff between blisa versions 0.2.0 dated 2026-06-02 and 1.0.0 dated 2026-07-10
blisa-0.2.0/blisa/inst/doc/getting-started.R |only blisa-1.0.0/blisa/DESCRIPTION | 14 - blisa-1.0.0/blisa/MD5 | 68 ++--- blisa-1.0.0/blisa/NAMESPACE | 1 blisa-1.0.0/blisa/NEWS.md |only blisa-1.0.0/blisa/R/blisa-class.R | 3 blisa-1.0.0/blisa/R/blisa.R | 143 ++++++++-- blisa-1.0.0/blisa/R/computeSpatialWeights.R | 16 + blisa-1.0.0/blisa/R/filterLRpairs.R | 33 +- blisa-1.0.0/blisa/R/hexBinCells.R | 54 +++- blisa-1.0.0/blisa/R/imports.R | 2 blisa-1.0.0/blisa/R/plotCCI.R | 60 +++- blisa-1.0.0/blisa/R/plotCCILR.R | 22 + blisa-1.0.0/blisa/R/plotCCIspatial.R | 36 ++ blisa-1.0.0/blisa/R/plotCCIsummary.R | 25 + blisa-1.0.0/blisa/R/plotHotspots.R | 29 +- blisa-1.0.0/blisa/R/plotLRrank.R | 31 +- blisa-1.0.0/blisa/R/runCCI.R | 22 + blisa-1.0.0/blisa/R/utils.R | 186 +++++++------ blisa-1.0.0/blisa/build/vignette.rds |binary blisa-1.0.0/blisa/inst/doc/getting-started.Rmd | 305 ++++++++++++++-------- blisa-1.0.0/blisa/inst/doc/getting-started.html | 324 ++++++++++++++---------- blisa-1.0.0/blisa/man/blisa-package.Rd | 21 + blisa-1.0.0/blisa/man/blisa.Rd | 62 ++++ blisa-1.0.0/blisa/man/computeSpatialWeights.Rd | 15 + blisa-1.0.0/blisa/man/filterLRpairs.Rd | 18 + blisa-1.0.0/blisa/man/hexBinCells.Rd | 33 ++ blisa-1.0.0/blisa/man/is.blisa.Rd | 4 blisa-1.0.0/blisa/man/plotCCI.Rd | 26 + blisa-1.0.0/blisa/man/plotCCILR.Rd | 17 + blisa-1.0.0/blisa/man/plotCCIspatial.Rd | 12 blisa-1.0.0/blisa/man/plotCCIsummary.Rd | 16 + blisa-1.0.0/blisa/man/plotHotspots.Rd | 8 blisa-1.0.0/blisa/man/plotLRrank.Rd | 8 blisa-1.0.0/blisa/man/runCCI.Rd | 19 + blisa-1.0.0/blisa/vignettes/getting-started.Rmd | 305 ++++++++++++++-------- 36 files changed, 1386 insertions(+), 552 deletions(-)
Title: Bayesian Estimation of Nonlinear Data (BEND)
Description: Provides a set of models to estimate nonlinear longitudinal data using Bayesian estimation methods. These models include the: 1) Bayesian Piecewise Random Effects Model (Bayes_PREM()) which estimates a piecewise random effects (mixture) model for a given number of latent classes and a latent number of possible changepoints in each class, and can incorporate class and outcome predictive covariates (see Lamm (2022) <https://hdl.handle.net/11299/252533> and Lock et al., (2018) <doi:10.1007/s11336-017-9594-5>), 2) Bayesian Crossed Random Effects Model (Bayes_CREM()) which estimates a linear, quadratic, exponential, or piecewise crossed random effects models where individuals are changing groups over time (e.g., students and schools; see Rohloff et al., (2024) <doi:10.1111/bmsp.12334>), and 3) Bayesian Bivariate Piecewise Random Effects Model (Bayes_BPREM()) which estimates a bivariate piecewise random effects model to jointly model two related outcomes (e.g., reading and [...truncated...]
Author: Corissa T. Rohloff [aut, cre] ,
Rik Lamm [aut] ,
Yadira Peralta [aut] ,
Nidhi Kohli [aut] ,
Eric F. Lock [aut]
Maintainer: Corissa T. Rohloff <corissa.wurth@gmail.com>
Diff between BEND versions 2.0.1 dated 2026-04-18 and 2.1.0 dated 2026-07-10
BEND-2.0.1/BEND/R/plot_BPREM.R |only BEND-2.0.1/BEND/R/plot_CREM.R |only BEND-2.0.1/BEND/R/plot_PREM.R |only BEND-2.0.1/BEND/R/print_BPREM.R |only BEND-2.0.1/BEND/R/print_CREM.R |only BEND-2.0.1/BEND/R/print_PREM.R |only BEND-2.0.1/BEND/R/summary_BPREM.R |only BEND-2.0.1/BEND/R/summary_CREM.R |only BEND-2.0.1/BEND/R/summary_PREM.R |only BEND-2.1.0/BEND/DESCRIPTION | 6 +- BEND-2.1.0/BEND/MD5 | 74 +++++++++++++++------------------ BEND-2.1.0/BEND/NAMESPACE | 19 +++----- BEND-2.1.0/BEND/NEWS.md | 6 ++ BEND-2.1.0/BEND/R/Bayes_BPREM.R | 13 ++++- BEND-2.1.0/BEND/R/Bayes_CREM.R | 13 ++++- BEND-2.1.0/BEND/R/Bayes_PREM.R | 13 ++++- BEND-2.1.0/BEND/R/getCoef.R | 24 ---------- BEND-2.1.0/BEND/R/getFitted.R | 24 ---------- BEND-2.1.0/BEND/R/getFixEf.R | 8 +-- BEND-2.1.0/BEND/R/getModelFit.R | 30 ++----------- BEND-2.1.0/BEND/R/getRanEf.R | 20 ++++++++ BEND-2.1.0/BEND/R/getVarCov.R | 10 ++-- BEND-2.1.0/BEND/R/plot.R |only BEND-2.1.0/BEND/R/plot_BEND.R | 4 - BEND-2.1.0/BEND/R/print.R |only BEND-2.1.0/BEND/R/summary.R |only BEND-2.1.0/BEND/data/results_bprem.rda |binary BEND-2.1.0/BEND/data/results_pcrem.rda |binary BEND-2.1.0/BEND/data/results_prem.rda |binary BEND-2.1.0/BEND/man/getCoef.Rd | 10 ---- BEND-2.1.0/BEND/man/getFitted.Rd | 10 ---- BEND-2.1.0/BEND/man/getFixEf.Rd | 4 - BEND-2.1.0/BEND/man/getModelFit.Rd | 14 +----- BEND-2.1.0/BEND/man/getRanEf.Rd | 7 ++- BEND-2.1.0/BEND/man/plot.BPREM.Rd | 2 BEND-2.1.0/BEND/man/plot.CREM.Rd | 2 BEND-2.1.0/BEND/man/plot.PREM.Rd | 2 BEND-2.1.0/BEND/man/plot_BEND.Rd | 2 BEND-2.1.0/BEND/man/print.BPREM.Rd | 2 BEND-2.1.0/BEND/man/print.CREM.Rd | 2 BEND-2.1.0/BEND/man/print.PREM.Rd | 2 BEND-2.1.0/BEND/man/summary.BPREM.Rd | 2 BEND-2.1.0/BEND/man/summary.CREM.Rd | 2 BEND-2.1.0/BEND/man/summary.PREM.Rd | 2 44 files changed, 145 insertions(+), 184 deletions(-)