Title: R Interface to the 'QuantLib' Library
Description: The 'RQuantLib' package makes parts of 'QuantLib' accessible from R
The 'QuantLib' project aims to provide a comprehensive software framework
for quantitative finance. The goal is to provide a standard open source library
for quantitative analysis, modeling, trading, and risk management of financial
assets.
Author: Dirk Eddelbuettel, Khanh Nguyen , Terry Leitch
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RQuantLib versions 0.4.16 dated 2022-05-05 and 0.4.17 dated 2022-10-25
ChangeLog | 11 DESCRIPTION | 8 MD5 | 18 configure | 1710 +++++++++++++++++++++++++++++++++------------------- configure.ac | 2 data/tsQuotes.RData |binary data/vcube.RData |binary inst/NEWS.Rd | 7 src/Makevars.in | 6 src/Makevars.win | 4 10 files changed, 1142 insertions(+), 624 deletions(-)
Title: Bayesian Additive Regression Trees
Description: An advanced implementation of Bayesian Additive Regression Trees with expanded features for data analysis and visualization.
Author: Adam Kapelner and Justin Bleich
Maintainer: Adam Kapelner <kapelner@qc.cuny.edu>
Diff between bartMachine versions 1.3 dated 2022-08-26 and 1.3.2 dated 2022-10-25
bartMachine-1.3.2/bartMachine/CHANGELOG | 8 + bartMachine-1.3.2/bartMachine/DESCRIPTION | 10 - bartMachine-1.3.2/bartMachine/MD5 | 56 ++++----- bartMachine-1.3.2/bartMachine/R/bartMachine.R | 9 - bartMachine-1.3.2/bartMachine/R/bart_package_builders.R | 42 ++++-- bartMachine-1.3.2/bartMachine/R/bart_package_cross_validation.R | 32 ++--- bartMachine-1.3.2/bartMachine/R/bart_package_variable_selection.R | 37 ++++-- bartMachine-1.3.2/bartMachine/inst/doc/bartMachine.pdf |binary bartMachine-1.3.2/bartMachine/inst/java/bart_java.jar |binary bartMachine-1.3.2/bartMachine/java/OpenSourceExtensions/MersenneTwisterFast.java | 2 bartMachine-1.3.2/bartMachine/java/OpenSourceExtensions/StatUtil.java | 61 +++++++++- bartMachine-1.3.2/bartMachine/java/OpenSourceExtensions/TDoubleHashSetAndArray.java |only bartMachine-1.3.2/bartMachine/java/bartMachine/StatToolbox.java | 39 +----- bartMachine-1.3.2/bartMachine/java/bartMachine/Tools.java | 26 +++- bartMachine-1.3.2/bartMachine/java/bartMachine/bartMachineClassification.java | 25 +++- bartMachine-1.3.2/bartMachine/java/bartMachine/bartMachineClassificationMultThread.java | 4 bartMachine-1.3.2/bartMachine/java/bartMachine/bartMachineTreeNode.java | 25 ++-- bartMachine-1.3.2/bartMachine/java/bartMachine/bartMachine_f_gibbs_internal.java | 5 bartMachine-1.3.2/bartMachine/java/bartMachine/bartMachine_i_prior_cov_spec.java | 2 bartMachine-1.3.2/bartMachine/man/bartMachine.Rd | 7 - bartMachine-1.3.2/bartMachine/man/bartMachineCV.Rd | 7 - bartMachine-1.3.2/bartMachine/man/bart_predict_for_test_data.Rd | 3 bartMachine-1.3.2/bartMachine/man/calc_credible_intervals.Rd | 3 bartMachine-1.3.2/bartMachine/man/dummify_data.Rd | 2 bartMachine-1.3.2/bartMachine/man/get_var_props_over_chain.Rd | 2 bartMachine-1.3.2/bartMachine/man/print.bartMachine.Rd | 3 bartMachine-1.3.2/bartMachine/man/set_bart_machine_num_cores.Rd | 4 bartMachine-1.3.2/bartMachine/man/summary.bartMachine.Rd | 2 bartMachine-1.3.2/bartMachine/man/var_selection_by_permute_cv.Rd | 5 bartMachine-1.3/bartMachine/java/OpenSourceExtensions/DoubleOpenHashSetAndArrayList.java |only 30 files changed, 282 insertions(+), 139 deletions(-)
Title: Regions of Common Profiles Modelling with Mixtures-of-Experts
Description: Identifies regions of common (species) profiles (RCPs), possibly when sampling artefacts are present. Within a region the probability of sampling all species remains approximately constant. This is performed using mixtures-of-experts models. The package also contains associated methods, such as diagnostics. Details of the method can be found in Foster et al (2013) <doi:10.1002/env.2245> and Foster et al. (2017) <doi:10.1111/rssc.12211>.
Author: Scott D. Foster
Maintainer: Scott Foster <scott.foster@csiro.au>
Diff between RCPmod versions 2.190 dated 2019-11-12 and 2.192 dated 2022-10-25
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/RCPmod.R | 10 +++++----- src/myDerivs4.cc | 2 +- src/myParms4.cc | 2 +- 5 files changed, 16 insertions(+), 16 deletions(-)
Title: Targeted Inference
Description: Various methods for targeted and semiparametric inference including
augmented inverse probability weighted estimators for missing data and
causal inference (Bang and Robins (2005) <doi:10.1111/j.1541-0420.2005.00377.x>)
and estimators for risk differences and relative risks (Richardson et al. (2017)
<doi:10.1080/01621459.2016.1192546>).
Author: Klaus K. Holst [aut, cre],
Andreas Nordland [aut]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between targeted versions 0.2.0 dated 2021-10-26 and 0.3 dated 2022-10-25
DESCRIPTION | 32 +- MD5 | 119 ++++++---- NAMESPACE | 23 +- NEWS.md | 14 + R/NB2.R | 59 +++-- R/RATE.R |only R/RcppExports.R | 4 R/SL.R |only R/ate.R | 10 R/cate.R |only R/cv.R | 138 +++++++++--- R/design.R |only R/expand.list.R | 14 - R/ml_model.R |only R/predict.NB.R | 4 R/predict.density.R | 1 R/riskreg.R | 62 +++-- R/scoring.R | 2 R/targeted-methods.R | 13 - R/targeted-package.R | 15 - README.md | 2 build/vignette.rds |binary inst/doc/ate.R | 2 inst/doc/ate.Rmd | 4 inst/doc/ate.html | 351 ++++++++++++++++++-------------- inst/doc/riskregression.R | 2 inst/doc/riskregression.Rmd | 4 inst/doc/riskregression.html | 393 +++++++++++++++++++++--------------- inst/include/target/glm.hpp | 9 inst/include/target/nb.hpp | 13 - inst/include/target/odesolver.hpp | 34 ++- inst/include/targeted_RcppExports.h | 25 ++ inst/misc/dp.R |only inst/misc/multiclasspred.Rmd |only inst/misc/ode.Rmd |only man/NB-class.Rd | 22 +- man/NB.Rd | 4 man/RATE.Rd |only man/RATE.surv.Rd |only man/SL.Rd |only man/Scoring.Rd | 6 man/ate.Rd | 2 man/calibration-class.Rd | 16 - man/cate.Rd |only man/cross_validated-class.Rd | 20 - man/crr.Rd |only man/cv.Rd | 28 +- man/design.Rd |only man/expand.list.Rd | 2 man/ml_model.Rd |only man/predict.NB.Rd | 2 man/predict.density.Rd | 3 man/riskreg.Rd | 12 - man/softmax.Rd | 2 man/specify_ode.Rd | 2 man/targeted-class.Rd | 22 +- man/targeted-package.Rd | 9 src/RcppExports.cpp | 48 ++++ src/glm.cpp | 10 src/nb.cpp | 109 +++++---- src/nb_interface.cpp | 26 ++ src/odesolver.cpp | 8 src/pava.cpp | 2 src/target.cpp | 2 src/utils.cpp | 2 tests/testthat/test-riskreg.R | 6 vignettes/ate.Rmd | 4 vignettes/riskregression.Rmd | 4 68 files changed, 1043 insertions(+), 679 deletions(-)
Title: Web Application Framework for R
Description: Makes it incredibly easy to build interactive web
applications with R. Automatic "reactive" binding between inputs and
outputs and extensive prebuilt widgets make it possible to build
beautiful, responsive, and powerful applications with minimal effort.
Author: Winston Chang [aut, cre] ,
Joe Cheng [aut],
JJ Allaire [aut],
Carson Sievert [aut] ,
Barret Schloerke [aut] ,
Yihui Xie [aut],
Jeff Allen [aut],
Jonathan McPherson [aut],
Alan Dipert [aut],
Barbara Borges [aut],
RStudio [cph],
jQuery Foundation [cph] [...truncated...]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shiny versions 1.7.2 dated 2022-07-18 and 1.7.3 dated 2022-10-25
shiny-1.7.2/shiny/build |only shiny-1.7.2/shiny/tests/testthat/_snaps/test-shinyAppTemplate.md |only shiny-1.7.2/shiny/tests/testthat/_snaps/test-shinyAppTemplate.new.md |only shiny-1.7.3/shiny/DESCRIPTION | 10 +- shiny-1.7.3/shiny/MD5 | 42 ++++------ shiny-1.7.3/shiny/NEWS.md | 8 + shiny-1.7.3/shiny/R/app_template.R | 4 shiny-1.7.3/shiny/R/devmode.R | 2 shiny-1.7.3/shiny/R/server.R | 2 shiny-1.7.3/shiny/R/shinyui.R | 2 shiny-1.7.3/shiny/inst/app_template/tests/testthat/setup-shinytest2.R |only shiny-1.7.3/shiny/inst/www/shared/shiny-autoreload.js | 2 shiny-1.7.3/shiny/inst/www/shared/shiny-showcase.css | 2 shiny-1.7.3/shiny/inst/www/shared/shiny-showcase.js | 2 shiny-1.7.3/shiny/inst/www/shared/shiny-testmode.js | 2 shiny-1.7.3/shiny/inst/www/shared/shiny.js | 4 shiny-1.7.3/shiny/inst/www/shared/shiny.min.css | 2 shiny-1.7.3/shiny/inst/www/shared/shiny.min.js | 4 shiny-1.7.3/shiny/man/devmode.Rd | 2 shiny-1.7.3/shiny/man/shinyAppTemplate.Rd | 2 shiny-1.7.3/shiny/man/shinyServer.Rd | 2 shiny-1.7.3/shiny/man/shinyUI.Rd | 2 shiny-1.7.3/shiny/tests/testthat/test-bootstrap.r | 2 shiny-1.7.3/shiny/tests/testthat/test-test-shinyAppTemplate.R | 1 24 files changed, 55 insertions(+), 44 deletions(-)
Title: Reference Based Multiple Imputation
Description: Implements reference based multiple imputation allowing for the imputation of longitudinal datasets using predefined strategies.
Author: Craig Gower-Page [aut, cre],
Alessandro Noci [aut],
Marcel Wolbers [ctb],
Roche [cph, fnd]
Maintainer: Craig Gower-Page <craig.gower-page@roche.com>
Diff between rbmi versions 1.1.4 dated 2022-05-18 and 1.2.1 dated 2022-10-25
rbmi-1.1.4/rbmi/man/eval_glmmtmb.Rd |only rbmi-1.1.4/rbmi/man/fit_mmrm_multiopt.Rd |only rbmi-1.2.1/rbmi/DESCRIPTION | 16 rbmi-1.2.1/rbmi/MD5 | 94 ++--- rbmi-1.2.1/rbmi/NAMESPACE | 7 rbmi-1.2.1/rbmi/NEWS.md | 10 rbmi-1.2.1/rbmi/R/draws.R | 32 - rbmi-1.2.1/rbmi/R/mcmc.R | 5 rbmi-1.2.1/rbmi/R/mmrm.R | 258 ++++---------- rbmi-1.2.1/rbmi/R/parallel.R | 59 ++- rbmi-1.2.1/rbmi/build/vignette.rds |binary rbmi-1.2.1/rbmi/inst/doc/advanced.html | 157 ++++----- rbmi-1.2.1/rbmi/inst/doc/quickstart.html | 329 +++++++++---------- rbmi-1.2.1/rbmi/inst/doc/stat_specs.html | 34 - rbmi-1.2.1/rbmi/man/Stack.Rd | 18 - rbmi-1.2.1/rbmi/man/analyse.Rd | 12 rbmi-1.2.1/rbmi/man/ancova.Rd | 6 rbmi-1.2.1/rbmi/man/as_indices.Rd | 6 rbmi-1.2.1/rbmi/man/as_mmrm_df.Rd | 9 rbmi-1.2.1/rbmi/man/as_mmrm_formula.Rd | 8 rbmi-1.2.1/rbmi/man/as_strata.Rd | 12 rbmi-1.2.1/rbmi/man/convert_to_imputation_list_df.Rd | 12 rbmi-1.2.1/rbmi/man/delta_template.Rd | 24 - rbmi-1.2.1/rbmi/man/encap_get_mmrm_sample.Rd | 4 rbmi-1.2.1/rbmi/man/eval_mmrm.Rd |only rbmi-1.2.1/rbmi/man/expand.Rd | 6 rbmi-1.2.1/rbmi/man/extract_params.Rd | 7 rbmi-1.2.1/rbmi/man/fit_mmrm.Rd | 25 - rbmi-1.2.1/rbmi/man/get_cluster.Rd | 7 rbmi-1.2.1/rbmi/man/get_mmrm_sample.Rd | 11 rbmi-1.2.1/rbmi/man/invert_indexes.Rd | 12 rbmi-1.2.1/rbmi/man/is_in_rbmi_development.Rd |only rbmi-1.2.1/rbmi/man/longDataConstructor.Rd | 78 ++-- rbmi-1.2.1/rbmi/man/progressLogger.Rd | 24 - rbmi-1.2.1/rbmi/man/random_effects_expr.Rd | 27 - rbmi-1.2.1/rbmi/man/scalerConstructor.Rd | 30 - rbmi-1.2.1/rbmi/man/simulate_test_data.Rd | 18 - rbmi-1.2.1/rbmi/man/split_dim.Rd | 12 rbmi-1.2.1/rbmi/man/split_imputations.Rd | 12 rbmi-1.2.1/rbmi/man/str_contains.Rd | 6 rbmi-1.2.1/rbmi/man/strategies.Rd | 6 rbmi-1.2.1/rbmi/man/transpose_imputations.Rd | 12 rbmi-1.2.1/rbmi/man/transpose_results.Rd | 12 rbmi-1.2.1/rbmi/tests/testthat/test-analyse.R | 2 rbmi-1.2.1/rbmi/tests/testthat/test-draws.R | 40 +- rbmi-1.2.1/rbmi/tests/testthat/test-mcmc.R | 1 rbmi-1.2.1/rbmi/tests/testthat/test-mmrm.R | 281 ++++++++-------- rbmi-1.2.1/rbmi/tests/testthat/test-parallel.R | 65 +++ rbmi-1.2.1/rbmi/vignettes/quickstart.Rmd | 6 rbmi-1.2.1/rbmi/vignettes/references.bib | 11 50 files changed, 924 insertions(+), 899 deletions(-)
Title: Sentiment Analysis Scorer
Description: Sentiment analysis is a popular technique in text mining that
attempts to determine the emotional state of some text. We provide a new
implementation of a common method for computing sentiment, whereby words are
scored as positive or negative according to a dictionary lookup. Then the
sum of those scores is returned for the document. We use the 'Hu' and 'Liu'
sentiment dictionary ('Hu' and 'Liu', 2004) <doi:10.1145/1014052.1014073>
for determining sentiment. The scoring function is 'vectorized' by document,
and scores for multiple documents are computed in parallel via 'OpenMP'.
Author: Drew Schmidt [aut, cre]
Maintainer: Drew Schmidt <wrathematics@gmail.com>
Diff between meanr versions 0.1-4 dated 2022-03-05 and 0.1-5 dated 2022-10-25
ChangeLog | 3 +++ DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 16 ++++++++-------- README.md | 2 +- src/hashtable/neghash.h | 8 ++------ src/hashtable/poshash.h | 8 ++------ src/meanr_native.c | 2 +- src/meanr_nthreads.c | 4 ++-- 9 files changed, 24 insertions(+), 29 deletions(-)
Title: Functions to Access Premier Hockey Federation and National
Hockey League Play by Play Data
Description: A utility to scrape and load play-by-play data
and statistics from the Premier Hockey Federation (PHF) <https://www.premierhockeyfederation.com/>, formerly
known as the National Women's Hockey League (NWHL). Additionally, allows access to the National Hockey League's
stats API <https://www.nhl.com/>.
Author: Ben Howell [aut],
Saiem Gilani [cre, aut],
Alyssa Longmuir [ctb]
Maintainer: Saiem Gilani <saiem.gilani@gmail.com>
Diff between fastRhockey versions 0.3.1 dated 2022-08-28 and 0.4.0 dated 2022-10-25
DESCRIPTION | 8 +- MD5 | 80 ++++++++++++------------ NEWS.md | 5 + R/espn_nhl_teams.R | 42 ++++++------ R/helpers_phf.R | 77 ++++++++++++++--------- R/nhl_conferences.R | 2 R/nhl_conferences_info.R | 2 R/nhl_divisions.R | 2 R/nhl_divisions_info.R | 2 R/nhl_draft.R | 4 - R/nhl_draft_prospects.R | 2 R/nhl_draft_prospects_info.R | 2 R/nhl_draft_year.R | 4 - R/nhl_game_boxscore.R | 16 ++-- R/nhl_game_feed.R | 18 ++--- R/nhl_game_shifts.R | 22 +++--- R/nhl_player_info.R | 2 R/nhl_player_stats.R | 4 - R/nhl_schedule.R | 20 ++++-- R/nhl_teams.R | 2 R/nhl_teams_info.R | 2 R/nhl_teams_roster.R | 6 - R/phf_game.R | 8 +- R/phf_leaders.R | 93 ++++++++++++---------------- R/phf_league_info.R | 11 --- R/phf_player_box.R | 60 +++++++++--------- R/phf_player_stats.R | 122 ++++++++++++++++++------------------- R/phf_schedule.R | 11 --- R/phf_standings.R | 11 --- R/phf_team_box.R | 2 R/phf_team_roster.R | 29 +++----- R/phf_team_stats.R | 99 +++++++++++++----------------- R/utils.R | 4 - README.md | 8 +- data/phf_team_logos.rda |binary man/fastRhockey-package.Rd | 2 man/nhl_schedule.Rd | 2 man/progressively.Rd | 4 - tests/testthat/test-phf_pbp.R | 93 ++++++++++++++++++++++++++-- tests/testthat/test-phf_schedule.R | 61 ++++++++++++++++-- tests/testthat/test-phf_team_box.R | 41 ++++++++++-- 41 files changed, 560 insertions(+), 425 deletions(-)
More information about volatilityTrader at CRAN
Permanent link
Title: Interpretive Clustering for Repertory Grids
Description: Shiny UI to identify cliques of related constructs in repertory grid data.
See Burr, King, & Heckmann (2020) <doi:10.1080/14780887.2020.1794088> for a description
of the interpretive clustering (IC) method.
Author: Mark Heckmann [aut, cre, cph] ,
Viv Burr [aut],
Nigel King [aut]
Maintainer: Mark Heckmann <heckmann.mark@gmail.com>
Diff between OpenRepGrid.ic versions 0.5.1 dated 2021-06-26 and 0.6.1 dated 2022-10-25
OpenRepGrid.ic-0.5.1/OpenRepGrid.ic/tests/testthat/test-file-format.R |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/DESCRIPTION | 17 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/LICENSE | 4 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/MD5 | 44 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/NAMESPACE | 14 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/R/01-utils.R | 113 - OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/R/02-calculate.R | 763 +++++----- OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/R/03-excel.R | 316 ++-- OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/R/OpenRepGrid.ic.R | 46 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/R/zzz.R | 7 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/build/partial.rdb |binary OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/examples/01-process-excel-file.R | 4 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/extdata/01-bertin-binary.png |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/extdata/02-screenshot.png |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/extdata/03-analysis-result.png |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/extdata/bibliography.bib |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/shiny/server.R | 60 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/shiny/ui.R | 239 +-- OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/shiny/www/03-analysis-result.png |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/shiny/www/example.Rmd |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/inst/shiny/www/example.html |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/man/OpenRepGrid.ic.Rd | 16 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/man/cell_text_split.Rd | 4 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/man/count_matches.Rd |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/man/ic.Rd | 4 OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/man/replace-poles.Rd |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/tests/testthat/Rplots.pdf |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/tests/testthat/test-calculate.R |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/tests/testthat/test-excel.R |only OpenRepGrid.ic-0.6.1/OpenRepGrid.ic/tests/testthat/test-utils.R |only 30 files changed, 881 insertions(+), 770 deletions(-)
More information about OpenRepGrid.ic at CRAN
Permanent link
Title: Access the Bioconductor Project Package Repository
Description: A convenient tool to install and update Bioconductor packages.
Author: Martin Morgan [aut] ,
Marcel Ramos [ctb, cre]
Maintainer: Marcel Ramos <marcel.ramos@roswellpark.org>
Diff between BiocManager versions 1.30.18 dated 2022-05-18 and 1.30.19 dated 2022-10-25
DESCRIPTION | 8 MD5 | 20 - NEWS | 11 R/install.R | 23 - R/valid.R | 28 - R/version.R | 2 inst/doc/BiocManager.html | 658 ++++++++++++++++++++++++++++--------- man/valid.Rd | 11 tests/testthat/test_install.R | 5 tests/testthat/test_repositories.R | 16 tests/testthat/test_version.R | 4 11 files changed, 579 insertions(+), 207 deletions(-)
Title: Tidy Interface to 'data.table'
Description: A tidy interface to 'data.table',
giving users the speed of 'data.table' while using tidyverse-like syntax.
Author: Mark Fairbanks [aut, cre],
Abdessabour Moutik [ctb],
Matt Carlson [ctb],
Ivan Leung [ctb],
Ross Kennedy [ctb],
Robert On [ctb],
Alexander Sevostianov [ctb],
Koen ter Berg [ctb]
Maintainer: Mark Fairbanks <mark.t.fairbanks@gmail.com>
Diff between tidytable versions 0.9.0 dated 2022-09-23 and 0.9.1 dated 2022-10-25
tidytable-0.9.0/tidytable/R/row_number.R |only tidytable-0.9.0/tidytable/man/row_number.Rd |only tidytable-0.9.1/tidytable/DESCRIPTION | 16 - tidytable-0.9.1/tidytable/MD5 | 100 +++---- tidytable-0.9.1/tidytable/NAMESPACE | 8 tidytable-0.9.1/tidytable/NEWS.md | 35 ++ tidytable-0.9.1/tidytable/R/across.R | 5 tidytable-0.9.1/tidytable/R/case.R | 23 - tidytable-0.9.1/tidytable/R/case_match.R | 12 tidytable-0.9.1/tidytable/R/case_when.R | 17 - tidytable-0.9.1/tidytable/R/expand_grid.R | 10 tidytable-0.9.1/tidytable/R/fill.R | 26 - tidytable-0.9.1/tidytable/R/get_dummies.R | 20 - tidytable-0.9.1/tidytable/R/group_by.R | 47 ++- tidytable-0.9.1/tidytable/R/in-notin.R | 30 +- tidytable-0.9.1/tidytable/R/join.R | 134 +++++++--- tidytable-0.9.1/tidytable/R/mutate.R | 13 tidytable-0.9.1/tidytable/R/print.R | 3 tidytable-0.9.1/tidytable/R/rank.R |only tidytable-0.9.1/tidytable/R/recode.R |only tidytable-0.9.1/tidytable/R/reexports.R |only tidytable-0.9.1/tidytable/R/relocate.R | 44 --- tidytable-0.9.1/tidytable/R/replace_na.R | 6 tidytable-0.9.1/tidytable/R/separate.R | 2 tidytable-0.9.1/tidytable/R/slice-head-tail.R | 4 tidytable-0.9.1/tidytable/R/slice.R | 2 tidytable-0.9.1/tidytable/R/tidytable-package.R | 89 ------ tidytable-0.9.1/tidytable/R/unnest.R | 6 tidytable-0.9.1/tidytable/R/utils-general.R | 15 - tidytable-0.9.1/tidytable/R/utils-prep_exprs.R | 6 tidytable-0.9.1/tidytable/README.md | 4 tidytable-0.9.1/tidytable/man/across..Rd | 5 tidytable-0.9.1/tidytable/man/across.Rd | 5 tidytable-0.9.1/tidytable/man/case..Rd | 12 tidytable-0.9.1/tidytable/man/case.Rd | 12 tidytable-0.9.1/tidytable/man/case_match..Rd | 12 tidytable-0.9.1/tidytable/man/case_match.Rd | 12 tidytable-0.9.1/tidytable/man/group_by..Rd | 4 tidytable-0.9.1/tidytable/man/group_by.Rd | 6 tidytable-0.9.1/tidytable/man/in-notin.Rd | 15 - tidytable-0.9.1/tidytable/man/nest_join.Rd |only tidytable-0.9.1/tidytable/man/rank.Rd |only tidytable-0.9.1/tidytable/man/recode.Rd |only tidytable-0.9.1/tidytable/man/reexports.Rd | 5 tidytable-0.9.1/tidytable/man/row_number..Rd | 16 - tidytable-0.9.1/tidytable/man/ungroup..Rd | 4 tidytable-0.9.1/tidytable/tests/testthat/test-across.R | 13 tidytable-0.9.1/tidytable/tests/testthat/test-case.R | 10 tidytable-0.9.1/tidytable/tests/testthat/test-group_by.R | 20 + tidytable-0.9.1/tidytable/tests/testthat/test-in-notin.R | 4 tidytable-0.9.1/tidytable/tests/testthat/test-join.R | 56 ++++ tidytable-0.9.1/tidytable/tests/testthat/test-mutate.R | 46 --- tidytable-0.9.1/tidytable/tests/testthat/test-rank.R |only tidytable-0.9.1/tidytable/tests/testthat/test-recode.R |only tidytable-0.9.1/tidytable/tests/testthat/test-relocate.R | 7 tidytable-0.9.1/tidytable/tests/testthat/test-slice-head-tail.R | 12 56 files changed, 528 insertions(+), 425 deletions(-)
Title: R's Interface to Maxima, Bringing Symbolic Computation into R
Description: Provides an interface to the powerful and fairly complete computer algebra system maxima.
It can be used to start and control 'Maxima' from within R by entering 'Maxima' commands.
It facilitates outputting results from 'Maxima' in 'LaTeX' and 'MathML'. 2D and 3D plots can be displayed directly. This package also registers a 'knitr'-engine
enabling 'Maxima' code chunks to be written in 'RMarkdown' documents.
Author: Eric Stemmler [aut, cre],
Kseniia Shumelchyk [aut],
Hans W. Borchers [aut]
Maintainer: Eric Stemmler <stemmler.eric@gmail.com>
Diff between rim versions 0.5.1 dated 2022-05-06 and 0.5.2 dated 2022-10-25
DESCRIPTION | 12 - MD5 | 20 +- NEWS.md | 6 R/interface.R | 45 ++++- inst/extdata/parser.lisp | 329 ++++++++++------------------------------- inst/extdata/result.md | 7 inst/extdata/test.Rmd | 8 man/maxima.engine.Rd | 4 man/rim-package.Rd | 20 +- tests/testthat/test-engine.R | 4 tests/testthat/test-warnings.R | 2 11 files changed, 161 insertions(+), 296 deletions(-)
Title: Factorization of Sparse Counts Matrices Through Poisson
Likelihood
Description: Creates a non-negative low-rank approximate factorization of a sparse counts matrix by maximizing Poisson
likelihood with L1/L2 regularization (e.g. for implicit-feedback recommender systems or bag-of-words-based topic modeling)
(Cortes, (2018) <arXiv:1811.01908>), which usually leads to very sparse user and item factors (over 90% zero-valued).
Similar to hierarchical Poisson factorization (HPF), but follows an optimization-based approach with regularization
instead of a hierarchical prior, and is fit through gradient-based methods instead of variational inference.
Author: David Cortes [aut, cre, cph],
Jean-Sebastien Roy [cph] ,
Stephen Nash [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between poismf versions 0.4.0-1 dated 2022-08-15 and 0.4.0-2 dated 2022-10-25
DESCRIPTION | 6 ++-- MD5 | 16 +++++----- R/poismf.R | 73 +++++++++++++++++++++++++++++--------------------- man/factors.Rd | 4 ++ man/poismf.Rd | 10 +++--- man/predict.poismf.Rd | 4 ++ man/topN.Rd | 12 +++++++- man/topN.new.Rd | 5 ++- src/rwrapper.c | 2 - 9 files changed, 81 insertions(+), 51 deletions(-)
More information about peopleanalytics at CRAN
Permanent link
Title: Collective Matrix Factorization for Recommender Systems
Description: Collective matrix factorization (a.k.a. multi-view or multi-way factorization,
Singh, Gordon, (2008) <doi:10.1145/1401890.1401969>) tries to approximate a (potentially very sparse
or having many missing values) matrix 'X' as the product of two low-dimensional matrices,
optionally aided with secondary information matrices about rows and/or columns of 'X',
which are also factorized using the same latent components.
The intended usage is for recommender systems, dimensionality reduction, and missing value imputation.
Implements extensions of the original model (Cortes, (2018) <arXiv:1809.00366>) and can produce
different factorizations such as the weighted 'implicit-feedback' model (Hu, Koren, Volinsky,
(2008) <doi:10.1109/ICDM.2008.22>), the 'weighted-lambda-regularization' model,
(Zhou, Wilkinson, Schreiber, Pan, (2008) <doi:10.1007/978-3-540-68880-8_32>),
or the enhanced model with 'implicit features' (Rendle, Zhang,
Koren, (2019) <arXiv:1905.01395>), with [...truncated...]
Author: David Cortes [aut, cre, cph],
Jorge Nocedal [cph] ,
Naoaki Okazaki [cph] ,
David Blackman [cph] ,
Sebastiano Vigna [cph] ,
NumPy Developers [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between cmfrec versions 3.4.3 dated 2022-07-09 and 3.4.3-2 dated 2022-10-25
DESCRIPTION | 6 MD5 | 36 +- R/factors.R | 21 - R/helpers.R | 12 R/impute.R | 5 R/items.R | 25 - R/predict.R | 16 - R/predict_new.R | 23 - R/topN.R | 40 +- build/vignette.rds |binary inst/doc/cmfrec_vignette.html | 601 +++++++++++++++++++++++++----------------- man/factors.Rd | 17 - man/imputeX.Rd | 11 man/predict.cmfrec.Rd | 6 man/predict_new.Rd | 34 ++ man/predict_new_items.Rd | 5 man/topN.Rd | 10 src/Rwrapper.c | 4 src/cmfrec.h | 3 19 files changed, 552 insertions(+), 323 deletions(-)
Title: Power and Sample Size Calculation for Non-Proportional Hazards
Description: Performs power and sample size calculation for non-proportional
hazards model using the Fleming-Harrington family of weighted log-rank
tests. The sequentially calculated log-rank test score statistics are
assumed to have independent increments as characterized in
Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean
and variance of log-rank test score statistics are calculated based on
Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities
are calculated using the recursive integration algorithm described in
Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168).
Author: Kaifeng Lu
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.1.9 dated 2022-10-09 and 0.1.10 dated 2022-10-25
DESCRIPTION | 8 MD5 | 90 ++--- NEWS.md | 8 R/RcppExports.R | 230 ++++--------- R/parameter_descriptions.R | 24 - R/wrappers.R | 189 ++++++++++ build/partial.rdb |binary man/accrual.Rd | 4 man/ad.Rd | 8 man/caltime.Rd | 17 man/fadjpbon.Rd | 2 man/fadjpsim.Rd | 5 man/fseqbon.Rd | 64 +-- man/getBound.Rd | 4 man/getDesign.Rd | 37 +- man/hd.Rd | 4 man/lrpower.Rd | 26 - man/lrsamplesize.Rd | 22 - man/lrsim.Rd | 33 - man/lrsim2e.Rd | 24 - man/lrsim2e3a.Rd | 40 +- man/lrsim3a.Rd | 39 +- man/lrstat.Rd | 18 - man/lrstat1.Rd | 18 - man/natrisk.Rd | 10 man/nevent.Rd | 10 man/nevent2.Rd | 10 man/param_accrualIntensity.Rd | 2 man/param_accrualTime.Rd | 2 man/param_gamma1_stratified.Rd | 2 man/param_gamma2_stratified.Rd | 2 man/param_lambda.Rd | 2 man/param_lambda1.Rd | 2 man/param_lambda2.Rd | 2 man/param_piecewiseSurvivalTime.Rd | 2 man/param_rho1.Rd | 4 man/param_rho2.Rd | 4 man/patrisk.Rd | 4 man/pd.Rd | 4 man/pevent.Rd | 4 man/qtpwexp.Rd | 4 man/repeatedPValue.Rd | 52 +- src/RcppExports.cpp | 51 +- src/fseqbon.cpp | 653 ++++++++++++++++++------------------- src/lrsim.cpp | 76 ++-- src/lrstat.cpp | 414 +++++++++++++++-------- 46 files changed, 1273 insertions(+), 957 deletions(-)
Title: Measuring Agreement Using Krippendorff's Alpha Coefficient
Description: Provides tools for applying Krippendorff's Alpha methodology <DOI:10.1080/19312450709336664>. Both the customary methodology and Hughes' methodology <DOI:10.48550/arXiv.2210.13265> are supported, the former being preferred for larger datasets, the latter for smaller datasets. The framework supports common and user-defined distance functions, and can accommodate any number of units, any number of coders, and missingness. Interval estimation can be done in parallel for either methodology.
Author: John Hughes
Maintainer: John Hughes <drjphughesjr@gmail.com>
Diff between krippendorffsalpha versions 1.1-2 dated 2022-05-11 and 2.0 dated 2022-10-25
krippendorffsalpha-1.1-2/krippendorffsalpha/inst/doc/krippendorffsalpha_vignette.pdf |only krippendorffsalpha-2.0/krippendorffsalpha/DESCRIPTION | 16 krippendorffsalpha-2.0/krippendorffsalpha/MD5 | 22 krippendorffsalpha-2.0/krippendorffsalpha/NAMESPACE | 2 krippendorffsalpha-2.0/krippendorffsalpha/R/krippendorff.R | 426 +++++++--- krippendorffsalpha-2.0/krippendorffsalpha/R/zzz.R | 8 krippendorffsalpha-2.0/krippendorffsalpha/inst/doc/krippendorffsalpha_R_journal.pdf |only krippendorffsalpha-2.0/krippendorffsalpha/man/confint.krippendorffsalpha.Rd | 11 krippendorffsalpha-2.0/krippendorffsalpha/man/influence.krippendorffsalpha.Rd | 4 krippendorffsalpha-2.0/krippendorffsalpha/man/krippendorffs.alpha.Rd | 43 - krippendorffsalpha-2.0/krippendorffsalpha/man/plot.krippendorffsalpha.Rd | 11 krippendorffsalpha-2.0/krippendorffsalpha/man/summary.krippendorffsalpha.Rd | 11 krippendorffsalpha-2.0/krippendorffsalpha/tests/testthat/test-krippendorffsalpha.R | 55 - 13 files changed, 425 insertions(+), 184 deletions(-)
More information about krippendorffsalpha at CRAN
Permanent link
Title: MASCOTNUM Algorithms Template Tools
Description: Helper functions for MASCOTNUM algorithm template, for design of numerical experiments practice:
algorithm template parser to support MASCOTNUM specification <https://www.gdr-mascotnum.fr/template.html>,
'ask & tell' decoupling injection (inspired by <https://search.r-project.org/CRAN/refmans/sensitivity/html/decoupling.html>)
to use "crimped" algorithms (like uniroot(), optim(), ...) from outside R,
basic template examples: Brent algorithm for 1 dim root finding and L-BFGS-B from base optim().
Author: Yann Richet [aut, cre]
Maintainer: Yann Richet <yann.richet@irsn.fr>
Diff between templr versions 0.1-0 dated 2022-08-31 and 0.2-0 dated 2022-10-25
DESCRIPTION | 10 +-- MD5 | 29 ++++----- NAMESPACE | 2 R/algorithm.R | 130 ++++++++++++++++++++++++++++++++++-------- R/asktell.R | 12 +-- README.md | 1 inst/BFGS.R | 8 ++ man/ask_X.Rd | 2 man/ask_Y.Rd | 2 man/ask_dX.Rd | 2 man/ask_dY.Rd | 2 man/list.results.Rd |only man/run.algorithm.Rd | 10 ++- man/tell_Y.Rd | 2 man/tell_dY.Rd | 2 tests/testthat/test-asktell.R | 37 +++++++++++ 16 files changed, 193 insertions(+), 58 deletions(-)
Title: Generate Publication Ready Visualizations of Single Cell
Transcriptomics Data
Description: A system that provides a streamlined way of generating publication ready plots for known Single-Cell transcriptomics data in a “publication ready” format. This is, the goal is to automatically generate plots with the highest quality possible, that can be used right away or with minimal modifications for a research article.
Author: Enrique Blanco-Carmona [cre, aut]
Maintainer: Enrique Blanco-Carmona <scpubr@gmail.com>
Diff between SCpubr versions 1.0.1 dated 2022-10-17 and 1.0.2 dated 2022-10-25
DESCRIPTION | 20 - MD5 | 168 ++++++------- NEWS.md | 90 ++++++- R/do_BarPlot.R | 13 - R/do_BoxPlot.R | 14 - R/do_ChordDiagramPlot.R | 4 R/do_CopyNumberVariantPlot.R | 72 +++-- R/do_CorrelationPlot.R | 4 R/do_DimPlot.R | 87 +++++- R/do_DotPlot.R | 16 - R/do_FeaturePlot.R | 81 ++++-- R/do_GeyserPlot.R | 47 ++- R/do_GroupwiseDEPlot.R | 295 ++++++++++++----------- R/do_PathwayActivityPlot.R | 27 +- R/do_RidgePlot.R | 28 +- R/do_TFActivityPlot.R | 11 R/do_ViolinPlot.R | 149 ++++++++--- R/do_VolcanoPlot.R | 4 R/globals.R | 3 R/utils.R | 231 +++++++++++++++--- R/zzz.R | 1 README.md | 2 inst/extdata/de_genes_example.rds |binary man/do_BarPlot.Rd | 60 ---- man/do_BeeSwarmPlot.Rd | 2 man/do_BoxPlot.Rd | 33 -- man/do_CellularStatesPlot.Rd | 71 ----- man/do_ChordDiagramPlot.Rd | 115 -------- man/do_CopyNumberVariantPlot.Rd | 38 -- man/do_CorrelationPlot.Rd | 24 - man/do_DimPlot.Rd | 95 ------- man/do_DotPlot.Rd | 6 man/do_EnrichmentHeatmap.Rd | 71 ----- man/do_FeaturePlot.Rd | 55 ---- man/do_GeyserPlot.Rd | 197 +-------------- man/do_GroupwiseDEPlot.Rd | 59 +--- man/do_NebulosaPlot.Rd | 13 - man/do_PathwayActivityPlot.Rd | 92 ------- man/do_RidgePlot.Rd | 64 +--- man/do_TFActivityPlot.Rd | 98 ------- man/do_TermEnrichmentPlot.Rd | 24 - man/do_ViolinPlot.Rd | 71 ++--- man/do_VolcanoPlot.Rd | 14 - man/doc_function.Rd | 8 man/examples/examples_do_BarPlot.R | 56 ---- man/examples/examples_do_BeeSwarmPlot.R | 2 man/examples/examples_do_BoxPlot.R | 29 -- man/examples/examples_do_CellularStatesPlot.R | 71 ----- man/examples/examples_do_ChordDiagramPlot.R | 115 -------- man/examples/examples_do_CopyNumberVariantPlot.R | 29 -- man/examples/examples_do_CorrelationPlot.R | 20 - man/examples/examples_do_DimPlot.R | 95 ------- man/examples/examples_do_EnrichmentHeatmap.R | 67 ----- man/examples/examples_do_FeaturePlot.R | 47 --- man/examples/examples_do_GeyserPlot.R | 188 -------------- man/examples/examples_do_GroupwiseDEPlot.R | 45 --- man/examples/examples_do_NebulosaPlot.R | 13 - man/examples/examples_do_PathwayActivityPlot.R | 84 ------ man/examples/examples_do_RidgePlot.R | 55 +--- man/examples/examples_do_TFActivityPlot.R | 90 ------- man/examples/examples_do_TermEnrichmentPlot.R | 24 - man/examples/examples_do_ViolinPlot.R | 35 -- man/examples/examples_do_VolcanoPlot.R | 14 - tests/testthat/setup.R | 29 +- tests/testthat/test-do_BarPlot.R | 51 +++ tests/testthat/test-do_BeeSwarmPlot.R | 54 ++-- tests/testthat/test-do_BoxPlot.R | 35 ++ tests/testthat/test-do_CellularStatesPlot.R | 117 ++++++--- tests/testthat/test-do_ChordDiagramPlot.R | 28 +- tests/testthat/test-do_CopyNumberVariantPlot.R | 24 + tests/testthat/test-do_CorrelationPlot.R | 24 + tests/testthat/test-do_DimPlot.R | 112 ++++---- tests/testthat/test-do_DotPlot.R | 57 ++-- tests/testthat/test-do_EnrichmentHeatmap.R | 36 ++ tests/testthat/test-do_FeaturePlot.R | 94 ++++--- tests/testthat/test-do_GeyserPlot.R | 39 ++- tests/testthat/test-do_GroupwiseDEPlot.R | 33 ++ tests/testthat/test-do_NebulosaPlot.R | 62 +++- tests/testthat/test-do_PathwayActivityPlot.R | 23 + tests/testthat/test-do_RidgePlot.R | 53 +++- tests/testthat/test-do_TFActivityPlot.R | 22 + tests/testthat/test-do_TermEnrichmentPlot.R | 34 +- tests/testthat/test-do_ViolinPlot.R | 112 +++++--- tests/testthat/test-do_VolcanoPlot.R | 21 + tests/testthat/test-utils.R | 2 85 files changed, 1876 insertions(+), 2842 deletions(-)
Title: Fake Web Apps for HTTP Testing
Description: Create a web app that makes it easier to test web clients
without using the internet. It includes a web app framework with path
matching, parameters and templates. Can parse various 'HTTP' request
bodies. Can send 'JSON' data or files from the disk. Includes a web app
that implements the <https://httpbin.org> web service.
Author: Gabor Csardi [aut, cre],
RStudio, Pbc. [cph],
Civetweb contributors [ctb] ,
Redoc contributors [ctb] ,
L. Peter Deutsch [ctb] ,
Martin Purschke [ctb] ,
Aladdin Enterprises [cph] ,
Maelle Salmon [ctb]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between webfakes versions 1.1.4 dated 2022-09-08 and 1.1.5 dated 2022-10-25
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 5 +++++ R/app-process.R | 5 ++++- R/mw-etag.R | 9 +++++++++ R/path.R | 2 +- man/mw_etag.Rd | 4 +++- man/new_app_process.Rd | 2 +- src/cleancall.c | 2 +- src/cleancall.h | 2 +- src/rweb.c | 4 ++-- tests/testthat/test-mw-static.R | 14 ++++++++++++++ 12 files changed, 55 insertions(+), 22 deletions(-)
Title: Analysis of Quaternary Science Data
Description: Stratigraphic diagrams, constrained clustering, transfer functions, and other methods for analysing Quaternary science data.
Author: Steve Juggins
Maintainer: Steve Juggins <Stephen.Juggins@ncl.ac.uk>
Diff between rioja versions 0.9-26 dated 2020-10-28 and 1.0-2 dated 2022-10-25
rioja-0.9-26/rioja/R/MLRC2.R |only rioja-0.9-26/rioja/R/randomPTF.R |only rioja-0.9-26/rioja/inst/riojaPlot |only rioja-1.0-2/rioja/DESCRIPTION | 18 ++++++----- rioja-1.0-2/rioja/MD5 | 56 ++++++++++++++++++----------------- rioja-1.0-2/rioja/NAMESPACE | 25 +++++++++++++-- rioja-1.0-2/rioja/R/MLRC.r | 9 ++++- rioja-1.0-2/rioja/R/MLRC2.r |only rioja-1.0-2/rioja/R/MR.r | 2 - rioja-1.0-2/rioja/R/randomPTF.r |only rioja-1.0-2/rioja/R/riojaPlot.R |only rioja-1.0-2/rioja/R/strat.plot.r | 35 +++++++++++++-------- rioja-1.0-2/rioja/R/zzz.r | 5 +-- rioja-1.0-2/rioja/build/partial.rdb |binary rioja-1.0-2/rioja/build/vignette.rds |only rioja-1.0-2/rioja/data/Ponds.rda |binary rioja-1.0-2/rioja/data/RLGH.rda |binary rioja-1.0-2/rioja/data/SWAP.rda |binary rioja-1.0-2/rioja/data/aber.rda |binary rioja-1.0-2/rioja/inst/ChangeLog | 3 + rioja-1.0-2/rioja/inst/doc |only rioja-1.0-2/rioja/inst/extdata |only rioja-1.0-2/rioja/man/MLRC2.Rd |only rioja-1.0-2/rioja/man/riojaPlot.Rd |only rioja-1.0-2/rioja/man/strat.plot.Rd | 3 + rioja-1.0-2/rioja/vignettes |only 26 files changed, 101 insertions(+), 55 deletions(-)
Title: Line Plots that Pop
Description: A set of geometries to make line plots a little bit nicer. Use
along with 'ggplot2' to:
- Improve the clarity of line plots with many overlapping lines
- Draw more realistic worms.
Author: Jacob Scott
Maintainer: Jacob Scott <jscott2718@gmail.com>
Diff between ggborderline versions 0.1.0 dated 2021-08-09 and 0.2.0 dated 2022-10-25
DESCRIPTION | 13 MD5 | 29 - NAMESPACE | 8 NEWS.md |only R/geom-borderpath.R | 807 ++++++++++++++++--------------- R/ggborderline-package.R |only R/utils.R | 228 ++++++++ README.md | 227 ++++---- man/draw_key_borderpath.Rd | 1 man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/geom_borderpath.Rd | 30 - man/ggborderline-extensions.Rd | 3 man/ggborderline-package.Rd |only man/scale_bordercolour_continuous.Rd | 14 17 files changed, 839 insertions(+), 521 deletions(-)
Title: Convex Hull
Description: Computes the convex hull in arbitrary dimension, based on the
Qhull library (<http://www.qhull.org>). The package provides a
complete description of the convex hull: edges, ridges, facets,
adjacencies. Triangulation is optional.
Author: C. B. Barber [cph] ,
The Geometry Center [cph],
Stephane Laurent [cph, aut, cre]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between cxhull versions 0.6.0 dated 2022-06-11 and 0.7.0 dated 2022-10-25
DESCRIPTION | 12 MD5 | 30 - NAMESPACE | 46 - NEWS.md | 123 ++-- R/angles.R | 120 ++-- R/data.R | 34 - R/hullMesh.R |only R/plot.R | 364 ++++++------- README.md | 1297 +++++++++++++++++++++--------------------------- data/daVinciSphere.rda |binary man/cxhull.Rd | 70 +- man/cxhullEdges.Rd | 172 +++--- man/daVinciSphere.Rd | 40 - man/dihedralAngles.Rd | 86 +-- man/hexacosichoron.Rd | 42 - man/hullMesh.Rd |only man/plotConvexHull3d.Rd | 208 +++---- 17 files changed, 1273 insertions(+), 1371 deletions(-)
Title: Easily Work with 'Font Awesome' Icons
Description: Easily and flexibly insert 'Font Awesome' icons into 'R Markdown'
documents and 'Shiny' apps. These icons can be inserted into HTML content
through inline 'SVG' tags or 'i' tags. There is also a utility function for
exporting 'Font Awesome' icons as 'PNG' images for those situations where
raster graphics are needed.
Author: Richard Iannone [aut, cre] ,
Christophe Dervieux [ctb] ,
Winston Chang [ctb],
Dave Gandy [ctb, cph] ,
RStudio [cph, fnd]
Maintainer: Richard Iannone <rich@rstudio.com>
Diff between fontawesome versions 0.3.0 dated 2022-07-20 and 0.4.0 dated 2022-10-25
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Title: Ensemble Platform for Species Distribution Modeling
Description: Functions for species distribution modeling, calibration and evaluation,
ensemble of models, ensemble forecasting and visualization. The package permits to run
consistently up to 10 single models on a presence/absences (resp presences/pseudo-absences)
dataset and to combine them in ensemble models and ensemble projections. Some bench of other
evaluation and visualisation tools are also available within the package.
Author: Wilfried Thuiller [aut],
Damien Georges [aut],
Maya Gueguen [aut, cre],
Robin Engler [aut],
Frank Breiner [aut],
Bruno Lafourcade [aut],
Remi Patin [aut]
Maintainer: Maya Gueguen <maya.gueguen@univ-grenoble-alpes.fr>
Diff between biomod2 versions 3.5.1 dated 2021-06-11 and 4.1-2 dated 2022-10-25
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Title: Black-Box Optimization Toolkit
Description: Provides a common framework for optimization of black-box
functions for other packages, e.g. 'mlr3tuning' or 'mlr3fselect'. It
offers various optimization methods e.g. grid search, random search,
generalized simulated annealing and iterated racing.
Author: Marc Becker [cre, aut] ,
Jakob Richter [aut] ,
Michel Lang [aut] ,
Bernd Bischl [aut] ,
Martin Binder [aut],
Olaf Mersmann [ctb]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between bbotk versions 0.5.4 dated 2022-08-25 and 0.6.0 dated 2022-10-25
DESCRIPTION | 19 +- MD5 | 57 ++++-- NAMESPACE | 6 NEWS.md | 6 R/CallbackOptimization.R |only R/ContextOptimization.R |only R/OptimInstance.R | 16 + R/OptimInstanceMultiCrit.R | 7 R/OptimInstanceSingleCrit.R | 7 R/Optimizer.R | 6 R/OptimizerFocusSearch.R | 14 - R/helper.R | 4 R/helper_irace.R | 79 ++++----- R/mlr_callbacks.R |only R/reexport.R |only R/zzz.R | 5 README.md | 37 ++-- build/partial.rdb |binary inst/WORDLIST | 3 inst/doc/bbotk.html | 238 ++++++++++++++--------------- man/CallbackOptimization.Rd |only man/ContextOptimization.Rd |only man/OptimInstance.Rd | 8 man/OptimInstanceMultiCrit.Rd | 6 man/OptimInstanceSingleCrit.Rd | 6 man/bbotk.backup.Rd |only man/callback_optimization.Rd |only man/reexports.Rd |only man/shrink_ps.Rd | 3 tests/testthat/helper.R | 38 ---- tests/testthat/test_Callback.R |only tests/testthat/test_OptimizerFocusSearch.R | 23 ++ tests/testthat/test_OptimizerIrace.R | 21 ++ tests/testthat/test_Progressor.R | 1 tests/testthat/test_mlr_callbacks.R |only 35 files changed, 342 insertions(+), 268 deletions(-)
Title: Create Custom Plots for Viewing Genetic Association Results
Description: A collection of functions for visualizing,exploring and annotating genetic association results.Association results from multiple traits can be viewed simultaneously along with gene annotation, over the entire genome (Manhattan plot) or in the more detailed regional view.
Author: Genuity Science [cph],
Thorhildur Juliusdottir [aut, cre],
Andri Stefansson [aut]
Maintainer: Thorhildur Juliusdottir <thorhildur@genuitysci.com>
Diff between topr versions 1.0.0 dated 2022-01-12 and 1.1.0 dated 2022-10-25
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Title: Rank and Social Hierarchy for Gregarious Animals
Description: Tools developed to facilitate the establishment of the rank and social hierarchy
for gregarious animals by the Si method developed by
Kondo & Hurnik (1990)<doi:10.1016/0168-1591(90)90125-W>. It is
also possible to determine the number of agonistic interactions between two
individuals, sociometric and dyadics matrix from dataset obtained through
electronic bins. In addition, it is possible plotting the results using a bar plot, box plot, and sociogram.
Author: Julia de Paula Soares Valente [aut, cre]
,
Matheus Deniz [aut, ctb] ,
Karolini Tenffen de Sousa [aut, ctb]
Maintainer: Julia de Paula Soares Valente <juliadepaulasoaresvalente@gmail.com>
Diff between socialh versions 0.1.0 dated 2021-05-14 and 0.1.1 dated 2022-10-25
DESCRIPTION | 27 +++-- MD5 | 30 ++++-- NAMESPACE | 30 ++++++ R/data.R |only R/dominance_value.R | 26 ++--- R/feeding_event_data.R |only R/globals.R |only R/plot.R |only R/replacement.R | 138 ++++++++++++++++++++++++++++ R/sociogram.R |only build/vignette.rds |binary data |only inst/doc/README.html | 222 ++++++++++++++++++++++++++++++++++++++++++++-- man/actorSociogram.Rd |only man/barDom.Rd |only man/bpDom.Rd |only man/dvalue.Rd | 4 man/feeding_event_data.Rd |only man/freqActor.Rd |only man/freqReactor.Rd |only man/reactorSociogram.Rd |only man/repByBin.Rd |only man/replacement.Rd | 4 23 files changed, 434 insertions(+), 47 deletions(-)
Title: 'STK++' Core Library Integration to 'R' using 'Rcpp'
Description: 'STK++' <http://www.stkpp.org> is a collection of C++ classes
for statistics, clustering, linear algebra, arrays (with an 'Eigen'-like API),
regression, dimension reduction, etc. The integration of the library to 'R' is
using 'Rcpp'. The 'rtkore' package includes the header files from the 'STK++'
core library. All files contain only template classes and/or inline functions.
'STK++' is licensed under the GNU LGPL version 2 or later. 'rtkore' (the 'stkpp'
integration into 'R') is licensed under the GNU GPL version 2 or later. See file
LICENSE.note for details.
Author: Serge Iovleff [aut, cre],
Parmeet Bhatia [ctb]
Maintainer: Serge Iovleff <serge.iovleff@stkpp.org>
Diff between rtkore versions 1.5.5 dated 2018-10-01 and 1.6.7 dated 2022-10-25
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rtkore-1.5.5/rtkore/vignettes/programs/makefile |only rtkore-1.5.5/rtkore/vignettes/rtkore.cls |only rtkore-1.6.7/rtkore/.Rinstignore |only rtkore-1.6.7/rtkore/DESCRIPTION | 12 rtkore-1.6.7/rtkore/MD5 | 443 +- rtkore-1.6.7/rtkore/R/rtkoreFlags.R | 6 rtkore-1.6.7/rtkore/build/vignette.rds |binary rtkore-1.6.7/rtkore/inst/NEWS.Rd | 7 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Arrays.R | 1 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Arrays.Rnw | 79 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Arrays.pdf |binary rtkore-1.6.7/rtkore/inst/doc/rtkpp-ArraysQuickRef.R | 1 rtkore-1.6.7/rtkore/inst/doc/rtkpp-ArraysQuickRef.Rnw | 2 rtkore-1.6.7/rtkore/inst/doc/rtkpp-ArraysQuickRef.pdf |binary rtkore-1.6.7/rtkore/inst/doc/rtkpp-Introduction.R | 1 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Introduction.Rnw | 2 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Introduction.pdf |binary rtkore-1.6.7/rtkore/inst/doc/rtkpp-Tips.R | 1 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Tips.pdf |binary rtkore-1.6.7/rtkore/inst/doc/rtkpp-Utilities.R | 1 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Utilities.Rnw | 15 rtkore-1.6.7/rtkore/inst/doc/rtkpp-Utilities.pdf |binary rtkore-1.6.7/rtkore/inst/include/Arrays.h | 37 rtkore-1.6.7/rtkore/inst/include/DManager.h | 7 rtkore-1.6.7/rtkore/inst/include/RTKpp.h | 9 rtkore-1.6.7/rtkore/inst/include/STKernel.h | 50 rtkore-1.6.7/rtkore/inst/include/STKpp.h | 8 rtkore-1.6.7/rtkore/inst/include/STatistiK.h | 7 rtkore-1.6.7/rtkore/inst/include/Sdk.h | 63 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_CG.h | 5 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_Cholesky.h | 3 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_Givens.h | 4 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_GramSchmidt.h | 2 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_Householder.h | 5 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_ILeastSquare.h | 6 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_ISvd.h | 4 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_ISymEigen.h | 2 rtkore-1.6.7/rtkore/inst/projects/Algebra/include/STK_transpose.h | 2 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Algo.h | 26 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Algo_FindZero.h | 13 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Const_Math.h | 2 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Const_Sequences.h | 2 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Funct_betaRatio.h | 2 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Funct_gamma.h | 11 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_Funct_gammaRatio.h | 2 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_IFunction.h | 5 rtkore-1.6.7/rtkore/inst/projects/Analysis/include/STK_ISerie.h | 7 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array1D.h | 60 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array1D_InnerIterator.h |only rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2D.h | 9 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DDiagonal.h | 13 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DLowerTriangular.h | 13 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DNumber.h | 20 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DPoint.h | 18 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DSquare.h | 7 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DUpperTriangular.h | 14 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2DVector.h | 30 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Array2D_Functors.h | 24 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ArrayBase.h | 79 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ArrayBaseApplier.h | 6 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ArrayBaseAssign.h | 16 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ArrayBaseInitializer.h | 2 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ArraysTraits.h | 39 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Arrays_Util.h | 34 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_CArray.h | 4 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_CArrayNumber.h | 8 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_CArrayPoint.h | 4 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_CArraySquare.h | 4 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_CArrayVector.h | 10 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_Const_Arrays.h | 50 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ExprBase.h | 67 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ExprBaseDot.h | 2 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ExprBaseFunctors.h | 3 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ExprBaseOperators.h | 51 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ExprBaseProduct.h | 2 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ExprBaseVisitor.h | 7 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_IArray1D.h | 310 + rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_IArray2D.h | 1904 ++++------ rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_IArray2DModifiers.h |only rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_IArray2DSlicers.h |only rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ICArray.h | 39 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_IContainer2D.h |only rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_IContainerRef.h | 2 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ISparseArray1D.h |only rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ITContainer.h | 69 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ITContainer1D.h | 64 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_ITContainer2D.h | 187 rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_SArray1D.h |only rtkore-1.6.7/rtkore/inst/projects/Arrays/include/STK_SArray2D.h |only 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rtkore-1.6.7/rtkore/inst/projects/StatModels/include/STK_ModelDiagGaussian_muj_sj.h | 4 rtkore-1.6.7/rtkore/inst/projects/StatModels/include/STK_ModelGamma_aj_bj.h | 9 rtkore-1.6.7/rtkore/inst/projects/StatModels/include/STK_Model_Util.h | 3 rtkore-1.6.7/rtkore/inst/projects/StatModels/include/STK_PenCriterion.h | 3 rtkore-1.6.7/rtkore/man/rtkoreFlags.Rd | 2 rtkore-1.6.7/rtkore/src/Makevars | 2 rtkore-1.6.7/rtkore/src/init_rtkore.c | 45 rtkore-1.6.7/rtkore/vignettes/rtkpp-Arrays.Rnw | 79 rtkore-1.6.7/rtkore/vignettes/rtkpp-ArraysQuickRef.Rnw | 2 rtkore-1.6.7/rtkore/vignettes/rtkpp-Introduction.Rnw | 2 rtkore-1.6.7/rtkore/vignettes/rtkpp-Utilities.Rnw | 15 242 files changed, 3660 insertions(+), 4947 deletions(-)
Title: Log File Analysis in International Large-Scale Assessments
Description: Enables users to handle the dataset cleaning for conducting
specific analyses with the log files from two international educational
assessments: the Programme for International Student Assessment (PISA,
<https://www.oecd.org/pisa/>) and the Programme for the International
Assessment of Adult Competencies (PIAAC,
<https://www.oecd.org/skills/piaac/>). An illustration of the analyses can be
found on the LOGAN Shiny app (<https://loganpackage.shinyapps.io/shiny/>) on
your browser.
Author: Denise Reis Costa [aut],
Waldir Leoncio [aut, cre]
Maintainer: Waldir Leoncio <w.l.netto@medisin.uio.no>
Diff between LOGAN versions 1.0.0 dated 2019-05-04 and 1.0.1 dated 2022-10-25
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Title: Systems Insights from Generation of Hydroclimatic Timeseries
Description: A tool to create hydroclimate scenarios, stress test systems and visualize system performance in scenario-neutral climate change impact assessments. Scenario-neutral approaches 'stress-test' the performance of a modelled system by applying a wide range of plausible hydroclimate conditions (see Brown & Wilby (2012) <doi:10.1029/2012EO410001> and Prudhomme et al. (2010) <doi:10.1016/j.jhydrol.2010.06.043>). These approaches allow the identification of hydroclimatic variables that affect the vulnerability of a system to hydroclimate variation and change. This tool enables the generation of perturbed time series using a range of approaches including simple scaling of observed time series (e.g. Culley et al. (2016) <doi:10.1002/2015WR018253>) and stochastic simulation of perturbed time series via an inverse approach (see Guo et al. (2018) <doi:10.1016/j.jhydrol.2016.03.025>). It incorporates 'Richardson-type' weather generator model configurations documented in R [...truncated...]
Author: Bree Bennett [aut, cre] ,
Sam Culley [aut] ,
Anjana Devanand [aut] ,
David McInerney [aut] ,
Seth Westra [aut] ,
Danlu Guo [ctb] ,
Holger Maier [ths]
Maintainer: Bree Bennett <bree.bennett@adelaide.edu.au>
Diff between foreSIGHT versions 1.0.0 dated 2020-12-17 and 1.1.0 dated 2022-10-25
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foreSIGHT-1.1.0/foreSIGHT/vignettes/Vignette_Tutorial.Rmd | 4280 +++--- foreSIGHT-1.1.0/foreSIGHT/vignettes/vignette.css | 510 133 files changed, 27315 insertions(+), 23274 deletions(-)
Title: Event Detection Using Confidence Bounds
Description: Detects sustained change in digital bio-marker data using
simultaneous confidence bands. Accounts for noise using an auto-regressive
model. Based on Buehlmann (1998) "Sieve bootstrap for smoothing in
nonstationary time series" <doi:10.1214/aos/1030563978>.
Author: Zheng Chen Man [aut, cre]
Maintainer: Zheng Chen Man <zheng.chen.man@alumni.ethz.ch>
Diff between edecob versions 1.2.0 dated 2022-09-25 and 1.2.1 dated 2022-10-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/edecob.R | 2 ++ R/plot.R | 2 +- 4 files changed, 9 insertions(+), 7 deletions(-)
Title: Highly Optimized Protocol Buffer Serializers
Description: Pure C++ implementations for reading and writing several common data
formats based on Google protocol-buffers. Currently supports 'rexp.proto' for
serialized R objects, 'geobuf.proto' for binary geojson, and 'mvt.proto' for
vector tiles. This package uses the auto-generated C++ code by protobuf-compiler,
hence the entire serialization is optimized at compile time. The 'RProtoBuf'
package on the other hand uses the protobuf runtime library to provide a general-
purpose toolkit for reading and writing arbitrary protocol-buffer data in R.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between protolite versions 2.1.2 dated 2022-10-17 and 2.1.3 dated 2022-10-25
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS | 3 +++ configure | 7 ++----- src/Makevars.win | 1 - 5 files changed, 14 insertions(+), 15 deletions(-)
Title: Phylogenetic Clustering (Phyloclustering)
Description: Phylogenetic clustering (phyloclustering) is an evolutionary
Continuous Time Markov Chain model-based approach to identify
population structure from molecular data without assuming
linkage equilibrium. The package phyclust (Chen 2011) provides a
convenient implementation of phyloclustering for DNA and SNP data,
capable of clustering individuals into subpopulations and identifying
molecular sequences representative of those subpopulations. It is
designed in C for performance, interfaced with R for visualization,
and incorporates other popular open source programs including
ms (Hudson 2002) <doi:10.1093/bioinformatics/18.2.337>,
seq-gen (Rambaut and Grassly 1997)
<doi:10.1093/bioinformatics/13.3.235>,
Hap-Clustering (Tzeng 2005) <doi:10.1002/gepi.20063> and
PAML baseml (Yang 1997, 2007) <doi:10.1093/bioinformatics/13.5.555>,
<doi:10.1093/molbev/msm088>,
for simulating data, additional analyses, and searching the best tree.
See the phyclust website for more i [...truncated...]
Author: Wei-Chen Chen [aut, cre],
Karin Dorman [aut],
Yan-Han Chen [ctb]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between phyclust versions 0.1-30 dated 2021-02-10 and 0.1-32 dated 2022-10-25
ChangeLog | 16 +++++ DESCRIPTION | 8 +- MD5 | 82 +++++++++++++------------- R/f_find_best.r | 4 - R/f_phyclust_em_step.r | 6 - R/f_phyclust_logL.r | 2 R/f_phyclust_se_update.r | 2 R/f_phyclust_update.r | 2 R/f_plotnj.r | 2 R/p_paml_baseml.r | 4 - R/p_seqgen.r | 6 - R/tzeng-code.getPIstar.getBigMatB.r | 10 ++- man/00_phyclust-package.Rd | 2 man/11_d.EMControl.Rd | 2 man/data.phylip.crohn.Rd | 2 man/getcut.fun.Rd | 2 man/haplo.post.prob.Rd | 2 man/plotdots.Rd | 2 man/zz_all.internal.tzeng.Rd | 2 src/msdir/R_ms.h | 2 src/msdir/R_rand.c | 2 src/msdir/ms.c | 113 +++++++++++++++++++----------------- src/msdir/ms.h | 6 + src/msdir/ms_main.c | 6 + src/msdir/streec.c | 30 +++++---- src/paml_baseml/baseml.c | 3 src/paml_baseml/tools.c | 12 ++- src/paml_baseml/treesub.c | 6 + src/phyclust/phyclust_em.h | 2 src/phyclust/phyclust_em_control.c | 2 src/phyclust/phyclust_label.c | 2 src/phyclust/phyclust_label.h | 2 src/seq-gen/aamodels.c | 14 ++-- src/seq-gen/eigen.c | 6 + src/seq-gen/evolve.c | 12 ++- src/seq-gen/evolve.h | 6 + src/seq-gen/model.c | 9 +- src/seq-gen/nucmodels.c | 12 ++- src/seq-gen/seq-gen.c | 39 ++++++++---- src/seq-gen/treefile.c | 3 src/seq-gen/treefile.h | 3 src/seq-gen/twister.c | 6 + 42 files changed, 267 insertions(+), 189 deletions(-)
Title: Programming with Big Data -- Interface to 'ZeroMQ'
Description: 'ZeroMQ' is a well-known library for high-performance
asynchronous messaging in scalable, distributed applications. This
package provides high level R wrapper functions to easily utilize
'ZeroMQ'. We mainly focus on interactive client/server programming
frameworks. For convenience, a minimal 'ZeroMQ' library (4.2.2)
is shipped with 'pbdZMQ', which can be used if no system installation
of 'ZeroMQ' is available. A few wrapper functions compatible with
'rzmq' are also provided.
Author: Wei-Chen Chen [aut, cre],
Drew Schmidt [aut],
Christian Heckendorf [aut] ,
George Ostrouchov [aut] ,
Whit Armstrong [ctb] ,
Brian Ripley [ctb] ,
R Core team [ctb] ,
Philipp A. [ctb] ,
Elliott Sales de Andrade [ctb] ,
Spencer Aiello [ctb] ,
Paul Andre [...truncated...]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between pbdZMQ versions 0.3-7 dated 2022-02-05 and 0.3-8 dated 2022-10-25
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/windows/zzz.r | 2 +- R/zzz.r.in | 2 +- src/R_zmq.h | 12 ++++++------ src/R_zmq_context.c | 2 +- src/R_zmq_message.c | 2 +- src/R_zmq_poll.c | 4 ++-- src/R_zmq_utility.c | 2 +- 10 files changed, 30 insertions(+), 26 deletions(-)
Title: Programming with Big Data -- Interface to MPI
Description: An efficient interface to MPI by utilizing S4
classes and methods with a focus on Single Program/Multiple Data
('SPMD')
parallel programming style, which is intended for batch parallel
execution.
Author: Wei-Chen Chen [aut, cre],
George Ostrouchov [aut],
Drew Schmidt [aut],
Pragneshkumar Patel [aut],
Hao Yu [aut],
Christian Heckendorf [ctb] ,
Brian Ripley [ctb] ,
R Core team [ctb] ,
Sebastien Lamy de la Chapelle [aut]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between pbdMPI versions 0.4-4 dated 2021-11-06 and 0.4-6 dated 2022-10-25
ChangeLog | 14 ++ DESCRIPTION | 10 -- MD5 | 74 +++++++-------- R/comm_chunk.R |only R/comm_seed.r | 6 - R/pkg_tools.r | 2 R/spmd_allcheck.r | 2 R/spmd_allreduce_obj.r | 6 - R/spmd_reduce_obj.r | 6 - R/util_execmpi.r | 2 R/zzz.r.in | 4 man/cc_comm.chunk.Rd |only src/comm_sort_double.c | 24 ++-- src/comm_sort_integer.c | 24 ++-- src/pkg_dl.c | 4 src/pkg_global.h | 32 +++--- src/pkg_tools.c | 206 +++++++++++++++++++++++++++++++++--------- src/spmd.c | 122 +++++++++++++++++------- src/spmd.h | 12 +- src/spmd_allgather.c | 36 +++---- src/spmd_allgatherv.c | 6 - src/spmd_allreduce.c | 24 ++-- src/spmd_alltoall.c | 6 - src/spmd_alltoallv.c | 6 - src/spmd_bcast.c | 26 ++--- src/spmd_communicator.c | 66 ++++++------- src/spmd_communicator_spawn.c | 10 +- src/spmd_gather.c | 36 +++---- src/spmd_gatherv.c | 6 - src/spmd_info.c | 8 - src/spmd_recv.c | 60 ++++++------ src/spmd_reduce.c | 24 ++-- src/spmd_scatter.c | 36 +++---- src/spmd_scatterv.c | 6 - src/spmd_send.c | 48 ++++----- src/spmd_sendrecv.c | 6 - src/spmd_sendrecv_replace.c | 6 - src/spmd_utility.c | 20 ++-- src/spmd_wait.c | 14 +- 39 files changed, 590 insertions(+), 410 deletions(-)
Title: Network-Based Gene Set Analysis
Description: Carry out network-based gene set analysis by incorporating external information about interactions among genes, as well as novel interactions learned from data. Implements methods described in Shojaie A, Michailidis G (2010) <doi:10.1093/biomet/asq038>, Shojaie A, Michailidis G (2009) <doi:10.1089/cmb.2008.0081>, and Ma J, Shojaie A, Michailidis G (2016) <doi:10.1093/bioinformatics/btw410>.
Author: Michael Hellstern [aut, cre],
Ali Shojaie [aut],
Jing Ma [aut],
Kun Yue [aut]
Maintainer: Michael Hellstern <mikeh1@uw.edu>
Diff between netgsa versions 4.0.3 dated 2021-12-07 and 4.0.4 dated 2022-10-25
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 3 +++ build/partial.rdb |binary inst/doc/netgsa.R | 2 +- inst/doc/netgsa.Rmd | 2 +- inst/doc/netgsa.html | 23 ++++++++++++++++------- src/RcppExports.cpp | 5 +++++ src/rcpp_lin_alg.cpp | 6 +++--- vignettes/netgsa.Rmd | 2 +- 10 files changed, 43 insertions(+), 26 deletions(-)
Title: Faster Generation of Quantile Quantile Plots with Large Samples
Description: New and faster implementations for quantile quantile plots.
The package also includes a function to prune data for quantile quantile
plots. This can drastically reduce the running time for large samples,
for 100 million samples, you can expect a factor 80X speedup.
Author: Gudmundur Einarsson [aut, cre],
Hafsteinn Einarsson [aut]
Maintainer: Gudmundur Einarsson <gudmundur.einarsson.phd@gmail.com>
Diff between fastqq versions 0.1.2 dated 2021-08-19 and 0.1.3 dated 2022-10-25
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 8 ++++++++ README.md | 21 +++++++++++++-------- man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/figures/README-ggplot-1.png |binary man/figures/README-qqnorm_ex-1.png |binary man/figures/README-qqplot_ex-1.png |binary src/code.cpp | 8 ++++---- 10 files changed, 38 insertions(+), 25 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-24 1.2.1
2021-07-09 1.2.0
2021-05-28 1.1.4
2020-06-25 1.1.3
2020-02-28 1.1.2
2018-12-02 1.1.1
2018-12-01 1.1.0
2018-08-29 1.0.1
2018-02-02 1.0.0
2017-11-17 0.3.0
2017-04-27 0.2.1
Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines spatial data types and supports geometrical operations
on them. Data types include point patterns, windows (domains),
pixel images, line segment patterns, tessellations and hyperframes.
Capabilities include creation and manipulation of data
(using command line or graphical interaction),
plotting, geometrical operations (rotation, shift, rescale,
affine transformation), convex hull, discretisation and
pixellation, Dirichlet tessellation, Delaunay triangulation,
pairwise distances, nearest-neighbour distances,
distance transform, morphological operations
(erosion, dilation, closing, opening), quadrat counting,
geometrical measurement, geometrical covariance,
colour maps, calculus on spatial domains,
Gaussian blur, level sets of images, transects of images,
intersections between objects, minimum distance matching.
(Excludes spatial data on a network, which are supported by
the package 'spatstat.linnet'.)
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [ctb],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Greg McSwiggan [ctb, cph],
Sebastian Meyer [ctb, cph],
Jens Oehlschlaegel [ctb, cph],
Suman Rakshit [ctb], [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.geom versions 2.4-0 dated 2022-03-29 and 3.0-3 dated 2022-10-25
DESCRIPTION | 48 ++-- MD5 | 475 +++++++++++++++++++++--------------------- NAMESPACE | 5 NEWS | 99 ++++++++ R/applynbd.R | 13 - R/areadiff.R | 2 R/breakpts.R | 7 R/bufftess.R | 4 R/clip.psp.R | 2 R/close3Dpairs.R | 6 R/closepairs.R | 97 +++++++- R/connected.R | 2 R/convexdist.R | 2 R/deldir.R | 2 R/discarea.R | 2 R/dist2dpath.R | 2 R/distan3D.R | 2 R/distances.R | 2 R/distanxD.R | 2 R/distbdry.R | 4 R/distmap.R | 2 R/edges2triangles.R | 2 R/ewcdf.R | 4 R/exactPdt.R | 2 R/exactdt.R | 2 R/fardist.R | 2 R/funxy.R | 3 R/hasclose.R | 2 R/hotrod.R | 2 R/images.R | 9 R/intensity.R | 4 R/is.R | 2 R/metricPdt.R | 2 R/minnndist.R | 2 R/nncross.R | 2 R/nncross3D.R | 2 R/nndist.R | 2 R/nnmap.R | 2 R/options.R | 26 +- R/persp.im.R | 10 R/pixellate.R | 5 R/plot.anylist.R | 6 R/plot.im.R | 171 ++++++++++++--- R/plot.ppp.R | 27 +- R/plot.psp.R | 5 R/pointweights.R | 4 R/polygood.R | 2 R/pppmatch.R | 2 R/psp.R | 6 R/psp2pix.R | 2 R/pspcross.R | 2 R/quasirandom.R | 2 R/randombasic.R | 24 +- R/rasterfilter.R | 2 R/solist.R | 31 ++ R/symbolmap.R | 76 +++++- R/tess.R | 6 R/unique.ppp.R | 2 R/uniquemap.R | 2 R/util.R | 6 R/weightedStats.R | 2 R/window.R | 5 R/wingeom.R | 4 inst/doc/packagesizes.txt | 2 man/Extract.ppp.Rd | 4 man/Window.Rd | 4 man/Window.quad.Rd | 4 man/affine.ppp.Rd | 4 man/anylist.Rd | 6 man/applynbd.Rd | 7 man/areaGain.Rd | 4 man/areaLoss.Rd | 4 man/as.data.frame.ppp.Rd | 4 man/as.data.frame.psp.Rd | 4 man/as.im.Rd | 9 man/as.layered.Rd | 2 man/as.owin.Rd | 3 man/as.rectangle.Rd | 5 man/as.tess.Rd | 10 man/bdist.points.Rd | 4 man/bufftess.Rd | 2 man/by.ppp.Rd | 5 man/cbind.hyperframe.Rd | 4 man/closepairs.Rd | 23 +- man/closetriples.Rd | 2 man/commonGrid.Rd | 7 man/compatible.Rd | 4 man/complement.owin.Rd | 4 man/connected.Rd | 2 man/contour.im.Rd | 36 ++- man/convexhull.Rd | 4 man/crossdist.default.Rd | 8 man/crossdist.pp3.Rd | 8 man/crossdist.ppp.Rd | 10 man/crossdist.psp.Rd | 2 man/default.dummy.Rd | 4 man/delaunay.Rd | 9 man/delaunayDistance.Rd | 21 + man/discretise.Rd | 1 man/distmap.Rd | 4 man/domain.Rd | 4 man/ewcdf.Rd | 2 man/flipxy.Rd | 4 man/funxy.Rd | 4 man/harmonise.Rd | 4 man/hist.funxy.Rd | 2 man/hist.im.Rd | 2 man/hyperframe.Rd | 6 man/im.object.Rd | 2 man/integral.im.Rd | 22 + man/intensity.Rd | 4 man/intensity.ppp.Rd | 2 man/intersect.owin.Rd | 2 man/invoke.symbolmap.Rd | 21 + man/is.linnet.Rd |only man/is.lpp.Rd | 8 man/is.marked.Rd | 2 man/is.marked.ppp.Rd | 6 man/is.multitype.Rd | 2 man/is.multitype.ppp.Rd | 2 man/macros/defns.Rd | 25 ++ man/markstat.Rd | 4 man/matchingdist.Rd | 4 man/mean.ewcdf.Rd | 2 man/nearestValue.Rd | 2 man/nndist.Rd | 9 man/nndist.pp3.Rd | 8 man/nnmark.Rd | 4 man/nnwhich.Rd | 7 man/nnwhich.pp3.Rd | 6 man/npoints.Rd | 4 man/pairdist.Rd | 10 man/pairdist.default.Rd | 10 man/pairdist.pp3.Rd | 8 man/pairdist.ppp.Rd | 11 man/periodify.Rd | 5 man/pixellate.ppp.Rd | 2 man/pixelquad.Rd | 8 man/plot.anylist.Rd | 4 man/plot.im.Rd | 23 +- man/plot.layered.Rd | 4 man/plot.listof.Rd | 2 man/plot.psp.Rd | 8 man/plot.quad.Rd | 4 man/plot.quadratcount.Rd | 2 man/plot.solist.Rd | 2 man/ppp.Rd | 1 man/pppdist.Rd | 4 man/pppmatching.Rd | 4 man/pppmatching.object.Rd | 4 man/print.owin.Rd | 4 man/print.ppp.Rd | 15 - man/print.quad.Rd | 4 man/project2set.Rd | 2 man/quad.object.Rd | 4 man/quadratcount.Rd | 12 - man/quadrats.Rd | 2 man/quadscheme.Rd | 15 - man/quadscheme.logi.Rd | 20 - man/rescale.im.Rd | 5 man/rescale.owin.Rd | 4 man/rescale.ppp.Rd | 4 man/rescale.psp.Rd | 4 man/rotate.ppp.Rd | 4 man/shift.ppp.Rd | 4 man/spatstat.geom-internal.Rd | 8 man/spatstat.geom-package.Rd | 16 - man/spatstat.options.Rd | 50 ++-- man/subset.ppp.Rd | 2 man/summary.owin.Rd | 4 man/summary.splitppp.Rd | 4 man/symbolmap.Rd | 7 man/tess.Rd | 4 man/test.crossing.psp.Rd | 2 man/union.quad.Rd | 4 man/unmark.Rd | 1 man/unstack.ppp.Rd | 2 man/unstack.solist.Rd | 2 man/with.hyperframe.Rd | 2 src/areadiff.c | 66 +++-- src/bdrymask.c | 16 - src/close3pair.c | 4 src/closepair.c | 122 ++++++---- src/connect.c | 40 +-- src/discarea.c | 46 ++-- src/discs.c | 19 - src/dist2dpath.h | 19 - src/distan3.c | 252 ++++++++++++---------- src/distances.c | 239 +++++++++++++-------- src/distmapbin.c | 39 ++- src/exactPdist.c | 56 ++-- src/exactdist.c | 58 ++--- src/fardist.c | 4 src/fardist.h | 27 +- src/hasclose.h | 60 ++--- src/hotrod.c | 38 +-- src/init.c | 1 src/knn3Ddist.h | 23 +- src/knn3DdistX.h | 28 +- src/knnXdist.h | 45 ++- src/knndist.h | 30 +- src/knndistance.c | 94 ++++---- src/knngrid.c | 72 +++--- src/knngrid.h | 38 +-- src/loccums.h | 23 +- src/loccumx.h | 23 -- src/maxnnd.h | 18 - src/metricPdist.c | 34 +-- src/metricPdist.h | 43 +-- src/minnnd.h | 18 - src/nearestpix.c | 31 +- src/nn3Ddist.c | 175 +++++++-------- src/nn3Ddist.h | 21 - src/nn3DdistX.h | 31 +- src/nnMDdist.c | 146 +++++++----- src/nndist.h | 25 -- src/nndistX.h | 43 ++- src/nndistance.c | 96 ++++---- src/nngrid.c | 72 +++--- src/nngrid.h | 34 +-- src/periodic.c | 139 ++++++++++++ src/poly2im.c | 39 ++- src/proto.h | 1 src/quasirandom.c | 11 src/raster.c | 27 +- src/rasterfilter.c | 15 - src/scan.c | 46 ++-- src/seg2pix.c | 28 +- src/seg2pix.h | 24 +- src/tabnum.c | 32 +- src/trigraf.c | 52 ++-- src/xyseg.c | 235 ++++++++++++-------- tests/testsAtoC.R | 48 +++- tests/testsEtoF.R | 25 ++ tests/testsGtoJ.R | 237 ++++++++++++++++++++ tests/testsP1.R | 2 tests/testsP2.R | 8 tests/testsS.R | 2 tests/testsUtoZ.R | 23 +- 239 files changed, 3188 insertions(+), 2074 deletions(-)
Title: Ordered Beta Regression Models with Brms
Description: Implements ordered beta regression models, which are for modeling continuous variables with upper and lower bounds, such as
survey sliders, dose-response relationships and indexes. For more information, see
Kubinec (2022) <doi:10.31235/osf.io/2sx6y>. The package is a front-end to the R package 'brms', which
facilitates a range of regression specifications, including hierarchical, dynamic and
multivariate modeling.
Author: Robert Kubinec [aut, cre]
Maintainer: Robert Kubinec <rmk7@nyu.edu>
Diff between ordbetareg versions 0.2.1 dated 2022-02-25 and 0.5.0 dated 2022-10-25
ordbetareg-0.2.1/ordbetareg/README.md |only ordbetareg-0.5.0/ordbetareg/DESCRIPTION | 12 ordbetareg-0.5.0/ordbetareg/MD5 | 29 ordbetareg-0.5.0/ordbetareg/NAMESPACE | 5 ordbetareg-0.5.0/ordbetareg/NEWS.md | 13 ordbetareg-0.5.0/ordbetareg/R/modeling.R | 337 ++ ordbetareg-0.5.0/ordbetareg/R/package_info.R | 4 ordbetareg-0.5.0/ordbetareg/R/plot.R |only ordbetareg-0.5.0/ordbetareg/R/preparation.R | 30 ordbetareg-0.5.0/ordbetareg/data/ord_fit_mean.rda |binary ordbetareg-0.5.0/ordbetareg/inst/doc/package_introduction.R | 17 ordbetareg-0.5.0/ordbetareg/inst/doc/package_introduction.Rmd | 45 ordbetareg-0.5.0/ordbetareg/inst/doc/package_introduction.html | 1211 ++++++++-- ordbetareg-0.5.0/ordbetareg/man/normalize.Rd | 7 ordbetareg-0.5.0/ordbetareg/man/ordbetareg.Rd | 26 ordbetareg-0.5.0/ordbetareg/man/pp_check_ordbeta.Rd |only ordbetareg-0.5.0/ordbetareg/vignettes/package_introduction.Rmd | 45 17 files changed, 1432 insertions(+), 349 deletions(-)
Title: Latent Variable Models
Description: A general implementation of Structural Equation Models
with latent variables (MLE, 2SLS, and composite likelihood
estimators) with both continuous, censored, and ordinal
outcomes (Holst and Budtz-Joergensen (2013) <doi:10.1007/s00180-012-0344-y>).
Mixture latent variable models and non-linear latent variable models
(Holst and Budtz-Joergensen (2020) <doi:10.1093/biostatistics/kxy082>).
The package also provides methods for graph exploration (d-separation,
back-door criterion), simulation of general non-linear latent variable
models, and estimation of influence functions for a broad range of
statistical models.
Author: Klaus K. Holst [aut, cre],
Brice Ozenne [ctb],
Thomas Gerds [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between lava versions 1.6.10 dated 2021-09-02 and 1.7.0 dated 2022-10-25
lava-1.6.10/lava/man/cv.Rd |only lava-1.6.10/lava/vignettes/correlation.org |only lava-1.6.10/lava/vignettes/gof.org |only lava-1.6.10/lava/vignettes/graphs.org |only lava-1.6.10/lava/vignettes/nonlinear.org |only lava-1.6.10/lava/vignettes/nonlinear_em0.rds |only lava-1.6.10/lava/vignettes/nonlinear_fitcv.rds |only lava-1.6.10/lava/vignettes/nonlinear_selmod.rds |only lava-1.6.10/lava/vignettes/simulation.org |only lava-1.7.0/lava/DESCRIPTION | 26 lava-1.7.0/lava/MD5 | 143 lava-1.7.0/lava/NAMESPACE | 32 lava-1.7.0/lava/NEWS.md | 118 lava-1.7.0/lava/R/Col.R | 4 lava-1.7.0/lava/R/Expand.R | 19 lava-1.7.0/lava/R/IC.R |only lava-1.7.0/lava/R/assoc.R | 6 lava-1.7.0/lava/R/complik.R | 10 lava-1.7.0/lava/R/contr.R | 41 lava-1.7.0/lava/R/correlation.R | 11 lava-1.7.0/lava/R/cv.R | 46 lava-1.7.0/lava/R/diagtest.R | 2 lava-1.7.0/lava/R/distribution.R | 22 lava-1.7.0/lava/R/estimate.default.R | 175 lava-1.7.0/lava/R/fix.R | 2 lava-1.7.0/lava/R/gkgamma.R | 14 lava-1.7.0/lava/R/glmest.R | 33 lava-1.7.0/lava/R/gof.R | 16 lava-1.7.0/lava/R/iid.R | 129 lava-1.7.0/lava/R/kappa.R | 8 lava-1.7.0/lava/R/lava-package.R | 14 lava-1.7.0/lava/R/measurement.error.R | 3 lava-1.7.0/lava/R/merge.R | 48 lava-1.7.0/lava/R/mixture.R | 7 lava-1.7.0/lava/R/modelsearch.R | 2 lava-1.7.0/lava/R/multinomial.R | 68 lava-1.7.0/lava/R/onload.R | 32 lava-1.7.0/lava/R/ordreg.R | 3 lava-1.7.0/lava/R/parsedesign.R | 39 lava-1.7.0/lava/R/pcor.R | 2 lava-1.7.0/lava/R/plot.estimate.R | 2 lava-1.7.0/lava/R/plot.sim.R | 45 lava-1.7.0/lava/R/predict.R | 2 lava-1.7.0/lava/R/regression.R | 15 lava-1.7.0/lava/R/score.survreg.R | 2 lava-1.7.0/lava/R/sim.default.R | 136 lava-1.7.0/lava/R/sim.lvm.R | 2 lava-1.7.0/lava/R/stack.R | 29 lava-1.7.0/lava/R/twostage.R | 21 lava-1.7.0/lava/R/var_ic.R |only lava-1.7.0/lava/R/zib.R | 3 lava-1.7.0/lava/README.md | 14 lava-1.7.0/lava/build/vignette.rds |binary lava-1.7.0/lava/inst/doc/correlation.R | 37 lava-1.7.0/lava/inst/doc/correlation.Rmd | 54 lava-1.7.0/lava/inst/doc/correlation.html | 659 + lava-1.7.0/lava/inst/doc/nonlinear.R | 12 lava-1.7.0/lava/inst/doc/nonlinear.Rmd | 22 lava-1.7.0/lava/inst/doc/nonlinear.html | 5915 ++++++++++++++++- lava-1.7.0/lava/man/Col.Rd | 4 lava-1.7.0/lava/man/IC.Rd |only lava-1.7.0/lava/man/contr.Rd | 4 lava-1.7.0/lava/man/estimate.default.Rd | 27 lava-1.7.0/lava/man/iid.Rd | 29 lava-1.7.0/lava/man/lava-package.Rd | 11 lava-1.7.0/lava/man/multinomial.Rd | 4 lava-1.7.0/lava/man/plot.sim.Rd | 2 lava-1.7.0/lava/man/plotConf.Rd | 4 lava-1.7.0/lava/man/regression-set.Rd | 8 lava-1.7.0/lava/man/sim.default.Rd | 63 lava-1.7.0/lava/man/summary.sim.Rd | 6 lava-1.7.0/lava/tests/testthat/test-estimate_default.R | 4 lava-1.7.0/lava/tests/testthat/test-inference.R | 2 lava-1.7.0/lava/tests/testthat/test-sim.R | 2 lava-1.7.0/lava/vignettes/correlation.Rmd | 54 lava-1.7.0/lava/vignettes/data |only lava-1.7.0/lava/vignettes/nonlinear.Rmd | 22 lava-1.7.0/lava/vignettes/ref.bib | 4 78 files changed, 7021 insertions(+), 1274 deletions(-)