Title: Computation and Visualization of Package Download Counts and
Percentiles
Description: Compute and visualize the cross-sectional and longitudinal number
and rank percentile of package downloads from Posit/RStudio's CRAN mirror.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between packageRank versions 0.8.3 dated 2023-11-09 and 0.9.0 dated 2024-04-23
packageRank-0.8.3/packageRank/man/archivePackages.Rd |only packageRank-0.8.3/packageRank/man/cranPackages.Rd |only packageRank-0.8.3/packageRank/man/extractArchiveDate.Rd |only packageRank-0.8.3/packageRank/man/fetchCranLog.Rd |only packageRank-0.8.3/packageRank/man/fetchRLog.Rd |only packageRank-0.8.3/packageRank/man/ipFilter.Rd |only packageRank-0.8.3/packageRank/man/packageArchive.Rd |only packageRank-0.8.3/packageRank/man/packageCRAN.Rd |only packageRank-0.8.3/packageRank/man/packages_in_Archive.Rd |only packageRank-0.8.3/packageRank/man/packages_observed_in_logs.Rd |only packageRank-0.8.3/packageRank/man/packages_on_CRAN.Rd |only packageRank-0.8.3/packageRank/man/packages_partitioned.Rd |only packageRank-0.8.3/packageRank/man/sequenceFilter.Rd |only packageRank-0.8.3/packageRank/man/sizeFilter.Rd |only packageRank-0.8.3/packageRank/man/smallFilter.Rd |only packageRank-0.8.3/packageRank/man/tripletFilter.Rd |only packageRank-0.9.0/packageRank/DESCRIPTION | 13 packageRank-0.9.0/packageRank/MD5 | 155 - 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packageRank-0.9.0/packageRank/R/ipPackage.R | 99 packageRank-0.9.0/packageRank/R/logInfo.R | 40 packageRank-0.9.0/packageRank/R/packageCountry.R | 20 packageRank-0.9.0/packageRank/R/packageDistribution.R | 54 packageRank-0.9.0/packageRank/R/packageHistory.R | 151 - packageRank-0.9.0/packageRank/R/packageLog.R | 109 packageRank-0.9.0/packageRank/R/packageRank-package.R |only packageRank-0.9.0/packageRank/R/packageRank.R | 142 - packageRank-0.9.0/packageRank/R/packageSample.R | 4 packageRank-0.9.0/packageRank/R/packageVersionPercent.R | 79 packageRank-0.9.0/packageRank/R/packagesFunctions.R | 17 packageRank-0.9.0/packageRank/R/populationPlot.R | 45 packageRank-0.9.0/packageRank/R/rLog.R |only packageRank-0.9.0/packageRank/R/resolveDate.R | 20 packageRank-0.9.0/packageRank/R/sequenceFilter.R | 187 - packageRank-0.9.0/packageRank/R/sizeFilter.R | 146 - packageRank-0.9.0/packageRank/R/smallFilter.R | 31 packageRank-0.9.0/packageRank/R/topCountry.R | 78 packageRank-0.9.0/packageRank/R/tripletFilter.R | 19 packageRank-0.9.0/packageRank/R/utilities.R | 26 packageRank-0.9.0/packageRank/R/validatePackage.R | 14 packageRank-0.9.0/packageRank/R/versionPlot.R | 27 packageRank-0.9.0/packageRank/R/weeklyDownloads.R | 34 packageRank-0.9.0/packageRank/README.md | 442 +-- packageRank-0.9.0/packageRank/man/annualDownloads.Rd | 5 packageRank-0.9.0/packageRank/man/countryDistribution.Rd | 9 packageRank-0.9.0/packageRank/man/countryPackage.Rd | 15 packageRank-0.9.0/packageRank/man/downloadsCountry.Rd | 2 packageRank-0.9.0/packageRank/man/figures/README-annualDownloads-1.png |only packageRank-0.9.0/packageRank/man/filteredDownloads.Rd | 10 packageRank-0.9.0/packageRank/man/ipCount.Rd | 4 packageRank-0.9.0/packageRank/man/ipPackage.Rd | 13 packageRank-0.9.0/packageRank/man/logInfo.Rd | 7 packageRank-0.9.0/packageRank/man/packageCountry.Rd | 13 packageRank-0.9.0/packageRank/man/packageDistribution.Rd | 7 packageRank-0.9.0/packageRank/man/packageHistory.Rd | 2 packageRank-0.9.0/packageRank/man/packageLog.Rd | 14 packageRank-0.9.0/packageRank/man/packageRank-package.Rd |only packageRank-0.9.0/packageRank/man/packageRank.Rd | 7 packageRank-0.9.0/packageRank/man/packageVersionPercent.Rd | 2 packageRank-0.9.0/packageRank/man/plot.annualDownloads.Rd | 16 packageRank-0.9.0/packageRank/man/plot.bioconductorRank.Rd | 4 packageRank-0.9.0/packageRank/man/plot.countryDistribution.Rd | 6 packageRank-0.9.0/packageRank/man/plot.cranDownloads.Rd | 2 packageRank-0.9.0/packageRank/man/plot.packageRank.Rd | 4 packageRank-0.9.0/packageRank/man/plot.packageVersionPercent.Rd | 2 packageRank-0.9.0/packageRank/man/print.countryDistribution.Rd |only packageRank-0.9.0/packageRank/man/rLog.Rd |only packageRank-0.9.0/packageRank/man/topCountryCodes.Rd | 2 packageRank-0.9.0/packageRank/man/weeklyDownloads.Rd | 2 90 files changed, 2248 insertions(+), 2188 deletions(-)
Title: NHANES Data Retrieval
Description: Utility to retrieve data from the National Health and Nutrition
Examination Survey (NHANES) website <https://www.cdc.gov/nchs/nhanes/index.htm>.
Author: Christopher Endres [aut, cre],
Laha Ale [aut] ,
Robert Gentleman [aut],
Deepayan Sarkar [aut]
Maintainer: Christopher Endres <cjendres1@gmail.com>
Diff between nhanesA versions 1.0 dated 2024-01-09 and 1.1 dated 2024-04-23
DESCRIPTION | 10 ++--- MD5 | 23 ++++++----- R/nhanes.R | 10 ++--- R/nhanes_codebook.R | 4 +- R/nhanes_constants.R | 1 R/nhanes_search.R | 33 +++------------- R/nhanes_tables.R | 75 +++++++++++++++++++++++++++++++++++--- R/nhanes_translate.R | 15 +++++++ build/vignette.rds |binary inst/CITATION |only inst/doc/Introducing_nhanesA.html | 4 +- inst/doc/UsingSurveyWeights.html | 8 ++-- man/nhanesManifest.Rd | 5 ++ 13 files changed, 127 insertions(+), 61 deletions(-)
Title: Causal Moderated Mediation Analysis
Description: Causal moderated mediation analysis using the methods proposed by Qin and Wang (2023) <doi:10.3758/s13428-023-02095-4>. Causal moderated mediation analysis is crucial for investigating how, for whom, and where a treatment is effective by assessing the heterogeneity of mediation mechanism across individuals and contexts. This package enables researchers to estimate and test the conditional and moderated mediation effects, assess their sensitivity to unmeasured pre-treatment confounding, and visualize the results. The package is built based on the quasi-Bayesian Monte Carlo method, because it has relatively better performance at small sample sizes, and its running speed is the fastest. The package is applicable to a treatment of any scale, a binary or continuous mediator, a binary or continuous outcome, and one or more moderators of any scale.
Author: Xu Qin [aut, cre, cph],
Lijuan Wang [ctb]
Maintainer: Xu Qin <xuqin@pitt.edu>
Diff between moderate.mediation versions 0.0.8 dated 2024-02-29 and 0.0.9 dated 2024-04-23
DESCRIPTION | 8 +++---- MD5 | 8 +++---- R/moderate.mediation.R | 54 +++++++++++++++++++++++++++++++++++++------------ man/modmed.Rd | 2 - man/modmed.sens.Rd | 2 - 5 files changed, 51 insertions(+), 23 deletions(-)
More information about moderate.mediation at CRAN
Permanent link
Title: Experimental Statistics and Graphics for Agricultural Sciences
Description: Performs the analysis of completely randomized experimental designs (CRD), randomized blocks (RBD) and Latin square (LSD), experiments in double and triple factorial scheme (in CRD and RBD), experiments in subdivided plot scheme (in CRD and RBD), subdivided and joint analysis of experiments in CRD and RBD, linear regression analysis, test for two samples. The package performs analysis of variance, ANOVA assumptions and multiple comparison test of means or regression, according to Pimentel-Gomes (2009, ISBN: 978-85-7133-055-9), nonparametric test (Conover, 1999, ISBN: 0471160687), test for two samples, joint analysis of experiments according to Ferreira (2018, ISBN: 978-85-7269-566-4) and generalized linear model (glm) for binomial and Poisson family in CRD and RBD (Carvalho, FJ (2019), <doi:10.14393/ufu.te.2019.1244>). It can also be used to obtain descriptive measures and graphics, in addition to correlations and creative graphics used in agricultural sciences (Agronomy, Zootech [...truncated...]
Author: Gabriel Danilo Shimizu [aut, cre]
,
Rodrigo Yudi Palhaci Marubayashi [aut, ctb]
,
Leandro Simoes Azeredo Goncalves [aut, ctb]
Maintainer: Gabriel Danilo Shimizu <gabrield.shimizu@gmail.com>
Diff between AgroR versions 1.3.5 dated 2023-09-13 and 1.3.6 dated 2024-04-23
DESCRIPTION | 8 MD5 | 84 +++++----- NAMESPACE | 3 NEWS.md | 14 + R/DBCglm_function.R | 4 R/DICglm_function.R | 4 R/FAT2DBC_function.R | 18 +- R/FAT2DBCad_function.R | 25 +-- R/FAT2DIC_function.R | 18 +- R/FAT2DICad_function.R | 25 +-- R/FAT3DBC_function.R | 8 R/FAT3DBCad_function.R | 10 - R/FAT3DIC_function.R | 8 R/FAT3DICad_function.R | 10 - R/PSUBDBC_function.R | 25 +-- R/PSUBDIC_function.R | 27 +-- R/bargraph_function.R | 10 - R/conjdbc_function.R | 9 - R/conjdic_function.R | 33 ++-- R/correlation_function.R | 34 ++-- R/dbc_function.R | 12 - R/dic_function.R | 16 + R/dql_function.R | 12 - R/dunnet_function.R | 11 - R/fat2_table.R |only R/grid_onefactor.R |only R/polynomial2color_function.R | 2 R/seggraph2_function.R | 6 R/seggraph_function.R | 8 R/sk_graph_function.R | 56 +++--- R/summarise_conj.R |only R/summarise_function.R | 337 +++++++++++++++++++++++++++++++++++------- R/tabledesc_function.R | 2 README.md | 4 build/partial.rdb |binary man/DBC.Rd | 3 man/DIC.Rd | 3 man/DQL.Rd | 3 man/bar_graph.Rd | 10 + man/corgraph.Rd | 20 ++ man/fat2_table.Rd |only man/grid.onefactor.Rd |only man/polynomial2_color.Rd | 2 man/sk_graph.Rd | 4 man/summarise_anova.Rd | 3 man/summarise_conj.Rd |only 46 files changed, 628 insertions(+), 263 deletions(-)
Title: Pediatric Blood Pressure
Description: Data and utilities for estimating pediatric blood pressure
percentiles by sex, age, and optionally height (stature) as described in
Martin et.al. (2022) <doi:10.1001/jamanetworkopen.2022.36918>.
Blood pressure percentiles for children under one year of age come from Gemelli
et.al. (1990) <doi:10.1007/BF02171556>. Estimates of blood pressure
percentiles for children at least one year of age are informed by
data from the National Heart, Lung, and Blood Institute (NHLBI) and the
Centers for Disease Control and Prevention (CDC)
<doi:10.1542/peds.2009-2107C> or from Lo et.al. (2013)
<doi:10.1542/peds.2012-1292>. The flowchart for selecting the informing
data source comes from Martin et.al. (2022)
<doi:10.1542/hpeds.2021-005998>.
Author: Peter DeWitt [aut, cre] ,
Blake Martin [ctb] ,
David Albers [ctb] ,
Tell Bennett [ctb]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between pedbp versions 1.0.2 dated 2022-11-23 and 2.0.0 dated 2024-04-23
pedbp-1.0.2/pedbp/man/pediatric_vital_sign_distributions.Rd |only pedbp-1.0.2/pedbp/tests/test-head_circ_for_age.R |only pedbp-1.0.2/pedbp/tests/test-length_for_age_inf.R |only pedbp-1.0.2/pedbp/tests/test-stature_for_age.R |only pedbp-1.0.2/pedbp/tests/test-weight_for_age_inf.R |only pedbp-1.0.2/pedbp/tests/test-weight_for_length_inf.R |only pedbp-1.0.2/pedbp/tests/test-weight_for_stature.R |only pedbp-2.0.0/pedbp/DESCRIPTION | 21 pedbp-2.0.0/pedbp/MD5 | 143 + pedbp-2.0.0/pedbp/NAMESPACE | 37 pedbp-2.0.0/pedbp/NEWS.md | 52 pedbp-2.0.0/pedbp/R/RcppExports.R |only pedbp-2.0.0/pedbp/R/bmi_for_age.R |only pedbp-2.0.0/pedbp/R/bp_cdf_plot.R | 137 + pedbp-2.0.0/pedbp/R/bp_charts.R |only pedbp-2.0.0/pedbp/R/bp_distribution.R | 282 +-- pedbp-2.0.0/pedbp/R/datasets.R | 12 pedbp-2.0.0/pedbp/R/est_norm.R | 35 pedbp-2.0.0/pedbp/R/growth-standard-charts.R |only pedbp-2.0.0/pedbp/R/growth-standards.R |only pedbp-2.0.0/pedbp/R/gs_cdf.R |only pedbp-2.0.0/pedbp/R/head_circumference_for_age.R |only pedbp-2.0.0/pedbp/R/lms.R | 532 +------ pedbp-2.0.0/pedbp/R/pedbp-defunct.R |only pedbp-2.0.0/pedbp/R/pedbp-package.R |only pedbp-2.0.0/pedbp/R/stature_for_age.R |only pedbp-2.0.0/pedbp/R/sysdata.rda |binary pedbp-2.0.0/pedbp/R/weight_for_age.R |only pedbp-2.0.0/pedbp/R/weight_for_stature.R |only pedbp-2.0.0/pedbp/R/zzz.R |only pedbp-2.0.0/pedbp/README.md | 177 +- pedbp-2.0.0/pedbp/build/partial.rdb |only pedbp-2.0.0/pedbp/build/vignette.rds |binary pedbp-2.0.0/pedbp/data/bp_parameters.rda |binary pedbp-2.0.0/pedbp/data/flynn2017.rda |only pedbp-2.0.0/pedbp/data/gemelli1990.rda |binary pedbp-2.0.0/pedbp/data/lo2013.rda |binary pedbp-2.0.0/pedbp/data/nhlbi_bp_norms.rda |binary pedbp-2.0.0/pedbp/inst/CITATION | 11 pedbp-2.0.0/pedbp/inst/WORDLIST | 36 pedbp-2.0.0/pedbp/inst/doc/bp-distributions.R | 365 ---- pedbp-2.0.0/pedbp/inst/doc/bp-distributions.Rmd | 731 +--------- pedbp-2.0.0/pedbp/inst/doc/bp-distributions.html | 693 ++------- pedbp-2.0.0/pedbp/inst/doc/growth-standards.R |only pedbp-2.0.0/pedbp/inst/doc/growth-standards.Rmd |only pedbp-2.0.0/pedbp/inst/doc/growth-standards.html |only pedbp-2.0.0/pedbp/inst/images/bp_cdf_example-1.png |binary pedbp-2.0.0/pedbp/inst/shinyapps/pedbp/overview.md | 33 pedbp-2.0.0/pedbp/inst/shinyapps/pedbp/server.R | 731 +++++++++- pedbp-2.0.0/pedbp/inst/shinyapps/pedbp/ui.R | 656 +++++++- pedbp-2.0.0/pedbp/man/bmi_for_age.Rd |only pedbp-2.0.0/pedbp/man/bp_cdf.Rd | 60 pedbp-2.0.0/pedbp/man/bp_chart.Rd |only pedbp-2.0.0/pedbp/man/bp_distribution.Rd | 176 ++ pedbp-2.0.0/pedbp/man/bpdata.Rd | 17 pedbp-2.0.0/pedbp/man/cppBP.Rd |only pedbp-2.0.0/pedbp/man/cppPGSF.Rd |only pedbp-2.0.0/pedbp/man/distribution-quantile-zscores-by-lms.Rd |only pedbp-2.0.0/pedbp/man/est_norm.Rd | 19 pedbp-2.0.0/pedbp/man/figures |only pedbp-2.0.0/pedbp/man/growth-standards.Rd |only pedbp-2.0.0/pedbp/man/gs_cdf.Rd |only pedbp-2.0.0/pedbp/man/gs_chart.Rd |only pedbp-2.0.0/pedbp/man/head_circumference_for_age.Rd |only pedbp-2.0.0/pedbp/man/pedbp-defunct.Rd |only pedbp-2.0.0/pedbp/man/pedbp-package.Rd |only pedbp-2.0.0/pedbp/man/stature_for_age.Rd |only pedbp-2.0.0/pedbp/man/weight_for_age.Rd |only pedbp-2.0.0/pedbp/man/weight_for_stature.Rd |only pedbp-2.0.0/pedbp/src |only pedbp-2.0.0/pedbp/tests/test-bmi_for_age.R | 350 +--- pedbp-2.0.0/pedbp/tests/test-bp-by-source.R |only pedbp-2.0.0/pedbp/tests/test-bp_cdf.R |only pedbp-2.0.0/pedbp/tests/test-bp_chart.R |only pedbp-2.0.0/pedbp/tests/test-bp_distributions.R | 453 ++++-- pedbp-2.0.0/pedbp/tests/test-bp_parameters.R | 28 pedbp-2.0.0/pedbp/tests/test-cppBP.R |only pedbp-2.0.0/pedbp/tests/test-cppPGSF.R |only pedbp-2.0.0/pedbp/tests/test-est_norm.R | 93 + pedbp-2.0.0/pedbp/tests/test-gemelli1990.R | 13 pedbp-2.0.0/pedbp/tests/test-gs_chart.R |only pedbp-2.0.0/pedbp/tests/test-head_circumference_for_age.R |only pedbp-2.0.0/pedbp/tests/test-height_for_age.R |only pedbp-2.0.0/pedbp/tests/test-internal-data.R |only pedbp-2.0.0/pedbp/tests/test-length_for_age.R |only pedbp-2.0.0/pedbp/tests/test-lms.R |only pedbp-2.0.0/pedbp/tests/test-lo2013.R | 16 pedbp-2.0.0/pedbp/tests/test-nhlbi_bp_norms.R | 12 pedbp-2.0.0/pedbp/tests/test-weight_for_age.R | 353 +--- pedbp-2.0.0/pedbp/tests/test-weight_for_height.R |only pedbp-2.0.0/pedbp/tests/test-weight_for_length.R |only pedbp-2.0.0/pedbp/vignettes/bp-distributions.Rmd | 731 +--------- pedbp-2.0.0/pedbp/vignettes/growth-standards.Rmd |only pedbp-2.0.0/pedbp/vignettes/references.bib | 41 94 files changed, 3328 insertions(+), 3718 deletions(-)
Title: A Framework for Data-Driven Stochastic Disease Spread
Simulations
Description: Provides an efficient and very flexible framework to
conduct data-driven epidemiological modeling in realistic large
scale disease spread simulations. The framework integrates
infection dynamics in subpopulations as continuous-time Markov
chains using the Gillespie stochastic simulation algorithm and
incorporates available data such as births, deaths and movements
as scheduled events at predefined time-points. Using C code for
the numerical solvers and 'OpenMP' (if available) to divide work
over multiple processors ensures high performance when simulating
a sample outcome. One of our design goals was to make the package
extendable and enable usage of the numerical solvers from other R
extension packages in order to facilitate complex epidemiological
research. The package contains template models and can be extended
with user-defined models. For more details see the paper by
Widgren, Bauer, Eriksson and Engblom (2019)
<doi:10.18637/jss.v091.i12>. The package also provides
function [...truncated...]
Author: Stefan Widgren [aut, cre] ,
Robin Eriksson [aut] ,
Stefan Engblom [aut] ,
Pavol Bauer [aut] ,
Thomas Rosendal [ctb] ,
Ivana Rodriguez Ewerloef [ctb] ,
Attractive Chaos [cph]
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between SimInf versions 9.6.0 dated 2023-12-20 and 9.7.0 dated 2024-04-23
DESCRIPTION | 8 MD5 | 93 ++--- NAMESPACE | 2 NEWS.md | 23 + R/C-generator.R | 144 +++++++- R/SimInf.R | 6 R/SimInf_indiv_events.R | 396 +++++++++++++++++++++-- R/check_arguments.R | 57 +++ R/distance.R | 15 R/mparse.R | 453 ++++++++++++++++++++------ R/prevalence.R | 26 + R/u0.R | 115 ++++-- R/v0.R | 15 README.md | 22 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/SimInf.pdf |binary inst/doc/post-process-data.R |only inst/doc/post-process-data.Rmd |only inst/doc/post-process-data.html |only inst/doc/scheduled-events.R | 39 ++ inst/doc/scheduled-events.Rmd | 96 +++++ inst/doc/scheduled-events.html | 102 +++++- man/SEIR.Rd | 8 man/SIR.Rd | 8 man/SIS.Rd | 8 man/SISe.Rd | 8 man/SISe3.Rd | 8 man/SISe3_sp.Rd | 8 man/SISe_sp.Rd | 8 man/SimInf.Rd | 28 + man/distance_matrix.Rd | 11 man/events.Rd | 22 - man/figures |only man/individual_events.Rd | 3 man/mparse.Rd | 89 +++-- man/node_events.Rd |only man/prevalence-SimInf_pfilter-method.Rd |only man/u0.Rd | 24 - man/v0-set.Rd | 13 src/init.c | 6 src/misc/SimInf_clean_indiv_events.c | 38 +- src/misc/SimInf_distance_matrix.c | 37 +- tests/SimInf_model.R | 4 tests/indiv_events.R | 540 +++++++++++++++++++++++++++++++- tests/ldata_sp.R | 23 + tests/mparse.R | 167 +++++++++ tests/pfilter.R | 12 tests/v0.R | 9 vignettes/post-process-data.Rmd |only vignettes/scheduled-events.Rmd | 96 +++++ 51 files changed, 2368 insertions(+), 422 deletions(-)
Title: Get Silhouettes of Organisms from PhyloPic
Description: Work with the PhyloPic Web Service (<http://api-docs.phylopic.org/v2/>)
to fetch silhouette images of organisms. Includes functions for adding
silhouettes to both base R plots and ggplot2 plots.
Author: William Gearty [aut, cre] ,
Lewis A. Jones [aut] ,
Scott Chamberlain [aut] ,
David Miller [ctb]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between rphylopic versions 1.3.0 dated 2023-12-20 and 1.4.0 dated 2024-04-23
DESCRIPTION | 8 MD5 | 94 ++++----- NAMESPACE | 4 NEWS.md | 5 R/add_phylopic_legend.R |only R/get_attribution.R | 103 +++++++--- R/pick_phylopic.R | 16 + R/zzz.r | 20 + build/vignette.rds |binary inst/doc/a-getting-started.Rmd | 27 +- inst/doc/a-getting-started.html | 27 +- inst/doc/b-advanced-ggplot.Rmd | 36 ++- inst/doc/b-advanced-ggplot.html | 73 +++---- inst/doc/c-advanced-base.Rmd | 2 inst/doc/c-advanced-base.html | 16 - man/add_phylopic_legend.Rd |only man/get_attribution.Rd | 13 + man/pick_phylopic.Rd | 6 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/add_phylopic_base/phylopic-in-background.svg | 11 - tests/testthat/_snaps/add_phylopic_legend |only tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph-with-img.svg | 13 - tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph-with-larger-glyphs.svg | 26 +- tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph-with-uuid.svg | 13 - tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph.svg | 24 +- tests/testthat/test-add_phylopic_legend.R |only tests/testthat/test-get_attribution.R | 11 - tests/testthat/test-pick_phylo.R | 5 tests/testthat/test-resolve_phylopic.R | 6 vignettes/a-getting-started.Rmd | 27 +- vignettes/b-advanced-ggplot.Rmd | 36 ++- vignettes/base-geog-plot-2-1.png |binary vignettes/base-penguin-plot-2-1.png |binary vignettes/base-penguin-plot-3-1.png |binary vignettes/base-penguin-plot-4-1.png |binary vignettes/base-penguin-plot-5-1.png |binary vignettes/base-phylo-plot-3-1.png |binary vignettes/base-phylo-plot-4-1.png |binary vignettes/c-advanced-base.Rmd | 2 vignettes/ggplot-geog-plot-2-1.png |binary vignettes/ggplot-geog-plot-3-1.png |binary vignettes/ggplot-penguin-plot-2-1.png |binary vignettes/ggplot-penguin-plot-3-1.png |binary vignettes/ggplot-penguin-plot-4-1.png |binary vignettes/ggplot-penguin-plot-5-1.png |binary vignettes/ggplot-penguin-plot-6-1.png |binary vignettes/ggplot-phylo-plot-2-1.png |binary vignettes/ggplot-phylo-plot-3-1.png |binary vignettes/ggplot-phylo-plot-4-1.png |binary 49 files changed, 391 insertions(+), 233 deletions(-)
Title: Infrastructure for Partially Observable Markov Decision
Processes (POMDP)
Description: Provides the infrastructure to define and analyze the solutions of Partially Observable Markov Decision Process (POMDP) models. Interfaces for various exact and approximate solution algorithms are available including value iteration, point-based value iteration and SARSOP. Smallwood and Sondik (1973) <doi:10.1287/opre.21.5.1071>.
Author: Michael Hahsler [aut, cph, cre]
,
Hossein Kamalzadeh [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between pomdp versions 1.2.1 dated 2024-04-09 and 1.2.2 dated 2024-04-23
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- NEWS.md | 7 +++++++ R/round_stochchastic.R | 5 ++--- R/simulate_MDP.R | 2 +- R/simulate_POMDP.R | 7 +++++-- inst/doc/gridworlds.html | 46 +++++++++++++++++++++++----------------------- inst/doc/pomdp.Rmd | 2 +- inst/doc/pomdp.html | 14 +++++++------- man/round_stochastic.Rd | 6 ++---- man/simulate_MDP.Rd | 2 +- man/simulate_POMDP.Rd | 1 + src/POMDP.cpp | 20 ++++++++++++++++---- src/math.cpp | 3 --- tests/testthat/test-cpp.R | 1 + vignettes/pomdp.Rmd | 2 +- 16 files changed, 87 insertions(+), 69 deletions(-)
Title: Preprocessing Operators and Pipelines for 'mlr3'
Description: Dataflow programming toolkit that enriches 'mlr3' with a diverse
set of pipelining operators ('PipeOps') that can be composed into graphs.
Operations exist for data preprocessing, model fitting, and ensemble
learning. Graphs can themselves be treated as 'mlr3' 'Learners' and can
therefore be resampled, benchmarked, and tuned.
Author: Martin Binder [aut, cre],
Florian Pfisterer [aut] ,
Lennart Schneider [aut] ,
Bernd Bischl [aut] ,
Michel Lang [aut] ,
Sebastian Fischer [ctb] ,
Susanne Dandl [aut]
Maintainer: Martin Binder <mlr.developer@mb706.com>
Diff between mlr3pipelines versions 0.5.1 dated 2024-03-26 and 0.5.2 dated 2024-04-23
mlr3pipelines-0.5.1/mlr3pipelines/tests/testthat/helper_compat.R |only mlr3pipelines-0.5.1/mlr3pipelines/tests/testthat/helper_functions.R |only mlr3pipelines-0.5.1/mlr3pipelines/tests/testthat/helper_test_pipeops.R |only mlr3pipelines-0.5.2/mlr3pipelines/DESCRIPTION | 18 mlr3pipelines-0.5.2/mlr3pipelines/MD5 | 320 +++++----- mlr3pipelines-0.5.2/mlr3pipelines/NAMESPACE | 1 mlr3pipelines-0.5.2/mlr3pipelines/NEWS.md | 8 mlr3pipelines-0.5.2/mlr3pipelines/R/GraphLearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpBoxCox.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpClassifAvg.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpEncode.R | 14 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpEncodeLmer.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpFilter.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpICA.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpImputeLearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpKernelPCA.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpLearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpLearnerCV.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpNMF.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpOVR.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpProxy.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpRandomResponse.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpRegrAvg.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpSmote.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpTextVectorizer.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpThreshold.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpTrafo.R | 6 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpTuneThreshold.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpVtreat.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpYeoJohnson.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/mlr_graphs.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/mlr_pipeops.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_bagging.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_convert_types.R |only mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_ovr.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_robustify.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_stacking.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_targettrafo.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/po.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/ppl.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/inst/testthat |only mlr3pipelines-0.5.2/mlr3pipelines/man/Graph.Rd | 8 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOp.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpEnsemble.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpImpute.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpTargetTrafo.Rd | 20 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpTaskPreproc.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpTaskPreprocSimple.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs.Rd | 10 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_bagging.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_convert_types.Rd |only mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_ovr.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_robustify.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_stacking.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_targettrafo.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_learners_graph.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_boxcox.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_branch.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_chunk.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_classbalancing.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_classifavg.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_classweights.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_colapply.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_collapsefactors.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_colroles.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_copy.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_datefeatures.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_encode.Rd | 24 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_encodeimpact.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_encodelmer.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_featureunion.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_filter.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_fixfactors.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_histbin.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_ica.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputeconstant.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputehist.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputelearner.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputemean.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputemedian.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputemode.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputeoor.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputesample.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_kernelpca.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_learner.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_learner_cv.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_missind.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_modelmatrix.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_multiplicityexply.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_multiplicityimply.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_mutate.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_nmf.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_nop.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_ovrsplit.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_ovrunite.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_pca.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_proxy.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_quantilebin.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_randomprojection.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_randomresponse.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_regravg.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_removeconstants.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_renamecolumns.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_replicate.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_scale.Rd | 10 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_scalemaxabs.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_scalerange.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_select.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_smote.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_spatialsign.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_subsample.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_targetinvert.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_targetmutate.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_targettrafoscalerange.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_textvectorizer.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_threshold.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_tunethreshold.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_unbranch.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_updatetarget.Rd | 18 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_vtreat.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_yeojohnson.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/po.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/ppl.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/helper_mlr3pipelines.R |only mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_Graph.R | 5 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_GraphLearner.R | 9 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_conversion.R | 7 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_dictionary.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_learner_weightedaverage.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_bagging.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_branching.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_convert_types.R |only mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_ovr.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_robustify.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_stacking.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_targettrafo.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_multichannels.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_multiplicities.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_boxcox.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_encodelmer.R | 8 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_featureunion.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_filter.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_ica.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_imputelearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_learner.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_learnercv.R | 5 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_missind.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_ovr.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_proxy.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_randomresponse.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_smote.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_targetmutate.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_targettrafoscalerange.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_textvectorizer.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_threshold.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_tunethreshold.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_updatetarget.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_yeojohnson.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_po.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_ppl.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_resample.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_typecheck.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_usecases.R | 11 164 files changed, 912 insertions(+), 615 deletions(-)
Title: Download Flight and Airport Data from Brazil
Description: Download flight and airport data from Brazil’s Civil Aviation Agency
(ANAC) <https://www.gov.br/anac>. The data includes detailed
information on all aircrafts, aerodromes, airports, and airport
movements registered in ANAC, on airfares and on every international
flight to and from Brazil, as well as domestic flights within the country.
Author: Rafael H. M. Pereira [aut, cre]
,
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between flightsbr versions 0.4.0 dated 2023-12-04 and 0.4.1 dated 2024-04-23
DESCRIPTION | 8 +- MD5 | 46 ++++++------- NAMESPACE | 36 +++++----- NEWS.md | 8 ++ R/utils.R | 8 +- README.md | 4 - man/download_aircrafts_data.Rd | 64 +++++++++--------- man/download_airfares_data.Rd | 70 ++++++++++---------- man/download_airport_movement_data.Rd | 70 ++++++++++---------- man/download_flightsbr_file.Rd | 76 ++++++++++----------- man/flightsbr.Rd | 75 ++++++++++----------- man/get_aircrafts_dates_available.Rd | 42 ++++++------ man/get_aircrafts_url.Rd | 52 +++++++------- man/get_airfares_dates_available.Rd | 52 +++++++------- man/get_airfares_url.Rd | 60 ++++++++--------- man/get_airport_movement_dates_available.Rd | 52 +++++++------- man/get_airport_movements_url.Rd | 52 +++++++------- man/get_flight_dates_available.Rd | 42 ++++++------ man/get_flights_url.Rd | 60 ++++++++--------- man/latest_flights_date.Rd | 44 ++++++------ man/read_aircrafts.Rd | 74 ++++++++++----------- man/read_airfares.Rd | 98 ++++++++++++++-------------- man/read_airport_movements.Rd | 78 +++++++++++----------- man/read_airports.Rd | 74 ++++++++++----------- 24 files changed, 628 insertions(+), 617 deletions(-)
Title: Collapsed Latent Position Cluster Model for Social Networks
Description: Markov chain Monte Carlo based inference routines for collapsed latent position cluster models or social networks, which includes searches over the model space (number of clusters in the latent position cluster model). The label switching algorithm used is that of Nobile and Fearnside (2007) <doi:10.1007/s11222-006-9014-7> which relies on the algorithm of Carpaneto and Toth (1980) <doi:10.1145/355873.355883>.
Author: Jason Wyse [aut, cre],
Caitriona Ryan [aut],
Nial Friel [ths]
Maintainer: Jason Wyse <wyseja@tcd.ie>
Diff between collpcm versions 1.3 dated 2024-01-09 and 1.4 dated 2024-04-23
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/collpcm.undo.label.switching.R | 19 +++++++++++-------- build/vignette.rds |binary inst/doc/collpcm.pdf |binary 6 files changed, 26 insertions(+), 17 deletions(-)
Title: General Utility Functions for Analysis of Clinical Data
Description: Utility functions to facilitate the import,
the reporting and analysis of clinical data.
Example datasets in 'SDTM' and 'ADaM' format, containing a subset of patients/domains
from the 'CDISC Pilot 01 study' are also available as R datasets to demonstrate
the package functionalities.
Author: Laure Cougnaud [aut, cre],
Michela Pasetto [aut],
Arne De Roeck [rev] ,
Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between clinUtils versions 0.1.4 dated 2023-01-06 and 0.1.5 dated 2024-04-23
DESCRIPTION | 10 MD5 | 81 R/compareTables.R | 90 R/data.R | 61 R/loadDataADaMSDTM.R | 13 R/plots-palettes.R | 1 R/plots-palettesCDISC.R | 36 R/plots-utility.R | 13 R/roundHalfUp.R | 8 R/table-getClinDT.R | 30 build/vignette.rds |binary data/dataADaMCDISCP01.RData |binary data/dataSDTMCDISCP01.RData |binary inst/NEWS | 6 inst/doc/clinUtils-vignette.html |90262 ++++++++++++++++++------------ inst/extdata/cdiscpilot01/SDTM/ae.xpt |binary inst/extdata/cdiscpilot01/SDTM/cm.xpt |binary inst/extdata/cdiscpilot01/SDTM/dm.xpt |binary inst/extdata/cdiscpilot01/SDTM/ds.xpt |only inst/extdata/cdiscpilot01/SDTM/ex.xpt |binary inst/extdata/cdiscpilot01/SDTM/lb.xpt |binary inst/extdata/cdiscpilot01/SDTM/mh.xpt |binary inst/extdata/cdiscpilot01/SDTM/qs.xpt |only inst/extdata/cdiscpilot01/SDTM/suppdm.xpt |only inst/extdata/cdiscpilot01/SDTM/sv.xpt |binary inst/extdata/cdiscpilot01/SDTM/vs.xpt |binary man/clinColors.Rd | 13 man/colorPaletteNRIND.Rd | 12 man/compareDiff.Rd | 40 man/compareTables.Rd | 38 man/comparisonTables-common-args.Rd | 22 man/dataADaMCDISCP01.Rd | 32 man/dataSDTMCDISCP01.Rd | 29 man/exportDiffData.Rd | 16 man/formatDTBarVar.Rd | 12 man/formatVarForPlotLabel.Rd | 13 man/getClinDT.Rd | 24 man/getClinDTButtons.Rd | 6 man/getLabelVar.Rd | 13 man/getPaletteCDISC.Rd | 12 man/mergeDiffWithData.Rd | 12 man/roundHalfUpTextFormat.Rd | 8 man/shapePaletteNRIND.Rd | 12 43 files changed, 56895 insertions(+), 34030 deletions(-)
Title: A Program for Missing Data
Description: A tool that "multiply imputes" missing data in a single cross-section
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data
set (such as collected by years for each of several countries).
Amelia II implements our bootstrapping-based algorithm that gives
essentially the same answers as the standard IP or EMis approaches,
is usually considerably faster than existing approaches and can
handle many more variables. Unlike Amelia I and other statistically
rigorous imputation software, it virtually never crashes (but please
let us know if you find to the contrary!). The program also
generalizes existing approaches by allowing for trends in time series
across observations within a cross-sectional unit, as well as priors
that allow experts to incorporate beliefs they have about the values
of missing cells in their data. Amelia II also includes useful
diagnostics of the fit of multiple imputation models. The p [...truncated...]
Author: James Honaker [aut],
Gary King [aut],
Matthew Blackwell [aut, cre]
Maintainer: Matthew Blackwell <mblackwell@gov.harvard.edu>
Diff between Amelia versions 1.8.1 dated 2022-11-19 and 1.8.2 dated 2024-04-23
Amelia-1.8.1/Amelia/man/amelia.package.Rd |only Amelia-1.8.2/Amelia/DESCRIPTION | 10 Amelia-1.8.2/Amelia/MD5 | 37 +- Amelia-1.8.2/Amelia/R/amelia-package.R |only Amelia-1.8.2/Amelia/R/ameliagui.r | 10 Amelia-1.8.2/Amelia/R/diag.r | 8 Amelia-1.8.2/Amelia/R/emb.r | 6 Amelia-1.8.2/Amelia/R/prep.r | 2 Amelia-1.8.2/Amelia/build/partial.rdb |binary Amelia-1.8.2/Amelia/build/vignette.rds |binary Amelia-1.8.2/Amelia/inst/doc/ameliaview.html | 183 +++++------ Amelia-1.8.2/Amelia/inst/doc/diagnostics.html | 175 +++++------ Amelia-1.8.2/Amelia/inst/doc/intro-mi.Rmd | 2 Amelia-1.8.2/Amelia/inst/doc/intro-mi.html | 86 ++--- Amelia-1.8.2/Amelia/inst/doc/using-amelia.Rmd | 4 Amelia-1.8.2/Amelia/inst/doc/using-amelia.html | 387 ++++++++++++------------- Amelia-1.8.2/Amelia/man/Amelia-package.Rd |only Amelia-1.8.2/Amelia/src/Makevars | 1 Amelia-1.8.2/Amelia/src/Makevars.win | 1 Amelia-1.8.2/Amelia/vignettes/intro-mi.Rmd | 2 Amelia-1.8.2/Amelia/vignettes/using-amelia.Rmd | 4 21 files changed, 455 insertions(+), 463 deletions(-)
Title: Dynamic OpenAPI/Swagger Client
Description: Access services specified in OpenAPI (formerly Swagger) format.
It is not a code generator. Client is generated dynamically as a list of R
functions.
Author: Darko Bergant [aut, cre],
Marcel Ramos [ctb],
Sean Davis [ctb],
Martin Morgan [ctb]
Maintainer: Darko Bergant <darko.bergant@gmail.com>
Diff between rapiclient versions 0.1.3 dated 2020-01-17 and 0.1.4 dated 2024-04-23
DESCRIPTION | 25 ++++++++++++++++--------- MD5 | 26 +++++++++++++------------- R/operations.R | 12 +++++++++--- R/print.R | 6 +++--- R/rapiclient.R | 3 +-- man/get_operation_definitions.Rd | 2 +- man/get_operations.Rd | 3 +-- man/get_parameters.Rd | 2 -- man/get_schema_graphviz_dot.Rd | 9 +++++++-- man/print.rapi_api.Rd | 2 +- man/print.rapi_operation.Rd | 2 +- man/print.rapi_schema_function.Rd | 2 +- man/rapiclient-package.Rd | 19 +++++++++++++++++++ man/result_handlers.Rd | 6 +++--- 14 files changed, 76 insertions(+), 43 deletions(-)
Title: Interfaces to Phylogenetic Software in R
Description: Functions that wrap popular phylogenetic software for sequence
alignment, masking of sequence alignments, and estimation of phylogenies and
ancestral character states.
Author: Christoph Heibl [aut, cre],
Natalie Cusimano [aut],
Franz-Sebastian Krah [aut]
Maintainer: Christoph Heibl <christoph.heibl@gmx.net>
Diff between ips versions 0.0.11 dated 2019-07-04 and 0.0.12 dated 2024-04-23
ips-0.0.11/ips/inst/NEWS.Rd |only ips-0.0.11/ips/man/deleteEmptyCells.Rd |only ips-0.0.12/ips/DESCRIPTION | 15 - ips-0.0.12/ips/MD5 | 132 ++++++++------- ips-0.0.12/ips/NAMESPACE | 19 ++ ips-0.0.12/ips/NEWS.md |only ips-0.0.12/ips/R/EmptyCells.R |only ips-0.0.12/ips/R/aliscore.R | 2 ips-0.0.12/ips/R/assembleDataNode.R | 29 ++- ips-0.0.12/ips/R/assembleDistributionNode.R | 115 ------------- ips-0.0.12/ips/R/assembleInitNode.R | 64 +++++-- ips-0.0.12/ips/R/assembleLikelihoodNode.R |only ips-0.0.12/ips/R/assembleLoggers.R | 189 ++++++++++++++++------ ips-0.0.12/ips/R/assembleOperators.R | 237 ++++++++++++++++++---------- ips-0.0.12/ips/R/assemblePriorNode.R |only ips-0.0.12/ips/R/assembleStateNode.R | 160 +++++++++++++++--- ips-0.0.12/ips/R/assembleTaxonSetPrior.R |only ips-0.0.12/ips/R/assembleTreeNode.R |only ips-0.0.12/ips/R/beastLog.R |only ips-0.0.12/ips/R/blastn.R |only ips-0.0.12/ips/R/combMyTree.R |only ips-0.0.12/ips/R/deleteEmptyCells.R | 37 ---- ips-0.0.12/ips/R/descendants.R | 1 ips-0.0.12/ips/R/extractBEASTstats.R | 1 ips-0.0.12/ips/R/gammaPrior.R |only ips-0.0.12/ips/R/gblocks.R | 4 ips-0.0.12/ips/R/identifyEmptyCells.R |only ips-0.0.12/ips/R/mafft.R | 18 +- ips-0.0.12/ips/R/mrbayes.R | 59 ++++++ ips-0.0.12/ips/R/multistateML.R | 6 ips-0.0.12/ips/R/operator.R |only ips-0.0.12/ips/R/parameter.R |only ips-0.0.12/ips/R/phylo2mafft.R | 2 ips-0.0.12/ips/R/pis.R | 30 +++ ips-0.0.12/ips/R/prank.R | 4 ips-0.0.12/ips/R/raxml.R | 6 ips-0.0.12/ips/R/rbeauti.R | 200 +++++++++++++++++++---- ips-0.0.12/ips/R/rbeauti.taxonset.R | 10 - ips-0.0.12/ips/R/rc.R | 90 +++++++--- ips-0.0.12/ips/R/read.beast.R | 176 ++++++++++---------- ips-0.0.12/ips/R/read.beast.table.R | 2 ips-0.0.12/ips/R/read.fas.R | 3 ips-0.0.12/ips/R/sister.R | 2 ips-0.0.12/ips/R/trimEnds.R | 26 ++- ips-0.0.12/ips/R/write.nex.R | 1 ips-0.0.12/ips/README.md | 2 ips-0.0.12/ips/data/log_list.rda |only ips-0.0.12/ips/data/operator_list.rda |only ips-0.0.12/ips/inst/CITATION | 11 - ips-0.0.12/ips/man/EmptyCells.Rd |only ips-0.0.12/ips/man/aliscore.Rd | 2 ips-0.0.12/ips/man/beastLog.Rd |only ips-0.0.12/ips/man/blastn.Rd |only ips-0.0.12/ips/man/combMyTree.Rd |only ips-0.0.12/ips/man/gblocks.Rd | 16 + ips-0.0.12/ips/man/ips-internal.Rd | 6 ips-0.0.12/ips/man/ips-package.Rd | 4 ips-0.0.12/ips/man/ips.16S.Rd | 2 ips-0.0.12/ips/man/ips.28S.Rd | 2 ips-0.0.12/ips/man/ips.cox1.Rd | 2 ips-0.0.12/ips/man/ips.tree.Rd | 2 ips-0.0.12/ips/man/mafft.Rd | 24 ++ ips-0.0.12/ips/man/mafft.merge.Rd | 3 ips-0.0.12/ips/man/mrbayes.Rd | 130 ++++++++------- ips-0.0.12/ips/man/mrbayes.lset.Rd | 4 ips-0.0.12/ips/man/mrbayes.mcmc.Rd | 2 ips-0.0.12/ips/man/mrbayes.prset.Rd | 2 ips-0.0.12/ips/man/multistate.Rd | 6 ips-0.0.12/ips/man/oi.Rd | 3 ips-0.0.12/ips/man/partitionfinder.Rd | 12 + ips-0.0.12/ips/man/phylo2mafft.Rd | 2 ips-0.0.12/ips/man/pis.Rd | 46 ++--- ips-0.0.12/ips/man/prank.Rd | 2 ips-0.0.12/ips/man/raxml.Rd | 24 ++ ips-0.0.12/ips/man/rbeauti.Rd | 112 +++++++------ ips-0.0.12/ips/man/rc.Rd |only ips-0.0.12/ips/man/read.beast.Rd | 12 - ips-0.0.12/ips/man/read.beast.table.Rd | 2 78 files changed, 1310 insertions(+), 765 deletions(-)
Title: 'R' Bindings for 'TMB'
Description: Native 'R' interface to 'TMB' (Template Model Builder) so models can be written entirely in 'R' rather than 'C++'. Automatic differentiation, to any order, is available for a rich subset of 'R' features, including linear algebra for dense and sparse matrices, complex arithmetic, Fast Fourier Transform, probability distributions and special functions. 'RTMB' provides easy access to model fitting and validation following the principles of Kristensen, K., Nielsen, A., Berg, C. W., Skaug, H., & Bell, B. M. (2016) <DOI:10.18637/jss.v070.i05> and Thygesen, U.H., Albertsen, C.M., Berg, C.W. et al. (2017) <DOI:10.1007/s10651-017-0372-4>.
Author: Kasper Kristensen [aut, cre]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between RTMB versions 1.4 dated 2023-12-01 and 1.5 dated 2024-04-23
DESCRIPTION | 8 MD5 | 64 +++--- NAMESPACE | 5 R/00roxygen.R | 18 + R/RcppExports.R | 36 ++- R/adjoint.R |only R/advector.R | 101 ++++++--- R/methods.R | 75 ++++++- R/mvgauss.R | 15 + build/vignette.rds |binary inst/doc/RTMB-advanced.R | 46 ++++ inst/doc/RTMB-advanced.html | 207 +++++++++++++------- inst/doc/RTMB-advanced.rmd | 92 ++++++++ inst/doc/RTMB-introduction.html | 6 inst/include |only inst/tinytest/test-distributions.R | 27 ++ inst/tinytest/test-tape.R | 50 ++++ man/ADapply.Rd | 6 man/ADconstruct.Rd | 5 man/ADjoint.Rd |only man/ADmatrix.Rd | 7 man/ADvector.Rd | 10 man/Distributions.Rd | 24 ++ man/RTMB-package.Rd | 8 man/TMB-interface.Rd | 3 man/Tape.Rd | 28 ++ src/RTMB.cpp | 382 ------------------------------------- src/RTMB.h | 11 - src/RTMB_tape.cpp |only src/RcppExports.cpp | 103 +++++++-- src/math.cpp | 20 + src/misc.cpp | 76 ++++++- vignettes/RTMB-advanced.rmd | 92 ++++++++ 33 files changed, 940 insertions(+), 585 deletions(-)
Title: Routines for L1 Estimation
Description: L1 estimation for linear regression using Barrodale and Roberts' method
<doi:10.1145/355616.361024> and the EM algorithm <doi:10.1023/A:1020759012226>.
Estimation of mean and covariance matrix using the multivariate Laplace distribution,
density, distribution function, quantile function and random number generation
for univariate and multivariate Laplace distribution <doi:10.1080/03610929808832115>.
Author: Felipe Osorio [aut, cre] ,
Tymoteusz Wolodzko [aut]
Maintainer: Felipe Osorio <felipe.osorios@usm.cl>
Diff between L1pack versions 0.41-24 dated 2023-05-18 and 0.41-245 dated 2024-04-23
ChangeLog | 17 +++++++++++++---- DESCRIPTION | 15 ++++++++------- MD5 | 46 +++++++++++++++++++++++++++------------------- NAMESPACE | 9 +++++---- R/LaplaceFit.R |only R/distn.R | 21 +++++++++++++-------- R/lad.R | 16 +++++++++------- R/wilson_hilferty.R |only data |only inst/CITATION | 8 ++++---- man/Laplace.Rd | 19 ++++++++----------- man/LaplaceFit.Rd |only man/confint.lad.Rd | 4 ++-- man/ereturns.Rd |only man/l1fit.Rd | 4 ++-- man/lad.Rd | 18 +++++++++--------- man/mLaplace.Rd | 16 ++++++++++------ man/vcov.lad.Rd | 2 +- man/wilson.hilferty.Rd |only src/R_init_L1pack.c | 30 ++++++++++++++++++++---------- src/base.h | 5 +++-- src/distn.c | 33 ++++++++++++++++++++++++++++++++- src/interface.c | 46 +++++++++++++++++++++++++++++++++++++++++++++- src/interface.h | 12 +++++++++++- src/lad.h | 6 ++---- src/lad_EM.c | 15 ++++++++++----- src/laplace_fitter.c |only src/wilson-hilferty.c |only 28 files changed, 234 insertions(+), 108 deletions(-)
Title: Send Email Messages
Description: A light, simple tool for sending emails with minimal dependencies.
Author: Andrew B. Collier [aut, cre, cph],
Matt Dennis [ctb],
Antoine Bichat [ctb] ,
Daniel Fahey [ctb],
Johann R. Kleinbub [ctb],
Panagiotis Moulos [ctb],
Swechhya Bista [ctb],
Colin Fay [ctb]
Maintainer: Andrew B. Collier <andrew.b.collier@gmail.com>
Diff between emayili versions 0.7.18 dated 2023-08-30 and 0.8.0 dated 2024-04-23
emayili-0.7.18/emayili/inst/shiny/send-message/rsconnect |only emayili-0.8.0/emayili/DESCRIPTION | 8 +-- emayili-0.8.0/emayili/MD5 | 13 ++--- emayili-0.8.0/emayili/NAMESPACE | 3 + emayili-0.8.0/emayili/R/encodable.R | 1 emayili-0.8.0/emayili/R/header.R | 1 emayili-0.8.0/emayili/R/server.R | 39 +++++++++++++-- emayili-0.8.0/emayili/man/server.Rd | 15 +++++ 8 files changed, 64 insertions(+), 16 deletions(-)
Title: Testing Randomness in R
Description: Provides several non parametric randomness tests for numeric sequences.
Author: Frederico Caeiro [aut, cre] ,
Ayana Mateus [aut]
Maintainer: Frederico Caeiro <fac@fct.unl.pt>
Diff between randtests versions 1.0.1 dated 2022-06-20 and 1.0.2 dated 2024-04-23
randtests-1.0.1/randtests/NEWS |only randtests-1.0.2/randtests/Changes |only randtests-1.0.2/randtests/DESCRIPTION | 8 +-- randtests-1.0.2/randtests/MD5 | 6 +- randtests-1.0.2/randtests/man/randtests-package.Rd | 56 ++++++++++----------- 5 files changed, 35 insertions(+), 35 deletions(-)
Title: Support Technical Processes Following 'Maelstrom Research'
Standards
Description: Functions to support rigorous processes in data cleaning,
evaluation, and documentation across datasets from different studies based
on Maelstrom Research guidelines. The package includes the core functions
to evaluate and format the main inputs that define the process, diagnose
errors, and summarize and evaluate datasets and their associated
data dictionaries. The main outputs are clean datasets and associated
metadata, and tabular and visual summary reports. As described in
Maelstrom Research guidelines for rigorous retrospective data
harmonization (Fortier I and al. (2017) <doi:10.1093/ije/dyw075>).
Author: Guillaume Fabre [aut, cre] ,
Maelstrom-research group [cph, fnd]
Maintainer: Guillaume Fabre <guijoseph.fabre@gmail.com>
Diff between madshapR versions 1.0.3 dated 2023-12-19 and 1.1.0 dated 2024-04-23
madshapR-1.0.3/madshapR/R/07-data_summarise.R |only madshapR-1.0.3/madshapR/man/madshapR_help.Rd |only madshapR-1.1.0/madshapR/DESCRIPTION | 6 madshapR-1.1.0/madshapR/MD5 | 78 - madshapR-1.1.0/madshapR/NAMESPACE | 1 madshapR-1.1.0/madshapR/NEWS.md | 516 ++++++----- madshapR-1.1.0/madshapR/R/01-utils.R | 4 madshapR-1.1.0/madshapR/R/02-dictionaries_functions.R | 60 - madshapR-1.1.0/madshapR/R/03-dataset_functions.R | 13 madshapR-1.1.0/madshapR/R/04-catalogue_functions.R | 302 ++++-- madshapR-1.1.0/madshapR/R/05-unit_checks.R | 230 +--- madshapR-1.1.0/madshapR/R/06-data_evaluate.R | 118 +- madshapR-1.1.0/madshapR/R/07-data_summarize.R |only madshapR-1.1.0/madshapR/R/08-data_visualize.R | 199 ++-- madshapR-1.1.0/madshapR/R/deprecated.R | 23 madshapR-1.1.0/madshapR/README.md | 2 madshapR-1.1.0/madshapR/build/partial.rdb |binary madshapR-1.1.0/madshapR/build/vignette.rds |binary madshapR-1.1.0/madshapR/data/madshapR_DEMO.rda |binary madshapR-1.1.0/madshapR/data/valueType_list.rda |binary madshapR-1.1.0/madshapR/inst/WORDLIST | 14 madshapR-1.1.0/madshapR/inst/doc/madshapR-vignette.R | 2 madshapR-1.1.0/madshapR/inst/doc/madshapR-vignette.Rmd | 2 madshapR-1.1.0/madshapR/inst/doc/madshapR-vignette.html | 2 madshapR-1.1.0/madshapR/man/check_dataset_categories.Rd | 13 madshapR-1.1.0/madshapR/man/data_dict_evaluate.Rd | 3 madshapR-1.1.0/madshapR/man/dataset_evaluate.Rd | 19 madshapR-1.1.0/madshapR/man/dataset_preprocess.Rd | 4 madshapR-1.1.0/madshapR/man/dataset_summarize.Rd | 5 madshapR-1.1.0/madshapR/man/dataset_visualize.Rd | 8 madshapR-1.1.0/madshapR/man/deprecated.Rd | 7 madshapR-1.1.0/madshapR/man/dossier_evaluate.Rd | 12 madshapR-1.1.0/madshapR/man/dossier_summarize.Rd | 2 madshapR-1.1.0/madshapR/man/madshapR_website.Rd |only madshapR-1.1.0/madshapR/man/summary_variables.Rd | 12 madshapR-1.1.0/madshapR/man/summary_variables_categorical.Rd | 12 madshapR-1.1.0/madshapR/man/summary_variables_date.Rd | 19 madshapR-1.1.0/madshapR/man/summary_variables_datetime.Rd | 10 madshapR-1.1.0/madshapR/man/summary_variables_numeric.Rd | 12 madshapR-1.1.0/madshapR/man/summary_variables_text.Rd | 12 madshapR-1.1.0/madshapR/man/variable_visualize.Rd | 7 madshapR-1.1.0/madshapR/vignettes/madshapR-vignette.Rmd | 2 42 files changed, 1029 insertions(+), 702 deletions(-)
Title: Nonparametric Change Point Detection for Multivariate Time
Series
Description: Implements the nonparametric moving sum procedure for detecting
changes in the joint characteristic function (NP-MOJO) for multiple change
point detection in multivariate time series. See McGonigle, E. T., Cho, H.
(2023) <doi:10.48550/arXiv.2305.07581> for description of the NP-MOJO methodology.
Author: Euan T. McGonigle [aut, cre],
Haeran Cho [aut]
Maintainer: Euan T. McGonigle <e.t.mcgonigle@soton.ac.uk>
Diff between CptNonPar versions 0.1.1 dated 2023-06-13 and 0.2.1 dated 2024-04-23
DESCRIPTION | 10 - MD5 | 29 ++- NAMESPACE | 1 NEWS.md | 13 + R/multilag.cpts.merge.R | 14 + R/multiscale.np.mojo.R |only R/np.mojo.R | 45 +++-- R/np.mojo.multilag.R | 52 +++--- R/utils.R | 2 man/multilag.cpts.merge.Rd | 8 - man/multiscale.np.mojo.Rd |only man/np.mojo.Rd | 41 ++--- man/np.mojo.multilag.Rd | 46 +++-- tests/testthat/test-multilag.R | 22 +- tests/testthat/test-multiscale.np.mojo.R |only tests/testthat/test-np.R | 240 ++++++++++++++++++------------- tests/testthat/test-np.mojo.R | 28 ++- 17 files changed, 318 insertions(+), 233 deletions(-)
Title: Multiple Data Analysis Tools for Property Listing Tasks
Description: Application to estimate statistical values using properties provided by a group of individuals to describe
concepts using 'shiny'. It estimates the underlying distribution to generate new descriptive words
Canessa et al. (2023) <doi:10.3758/s13428-022-01811-w>, applies a new clustering model, and uses simulations to estimate
the probability that two persons describe the same words based on their descriptions
Canessa et al. (2022) <doi:10.3758/s13428-022-02030-z>.
Author: Sebastian Moreno [aut, cre],
Cristobal Heredia [aut],
Enrique Canessa [ths],
Sergio Chaigneau [ths]
Maintainer: Sebastian Moreno <sebastian.moreno.araya@gmail.com>
Diff between WordListsAnalytics versions 0.2.0 dated 2024-04-18 and 0.2.1 dated 2024-04-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/PLT_server.R | 9 +++++---- 3 files changed, 10 insertions(+), 9 deletions(-)
More information about WordListsAnalytics at CRAN
Permanent link
Title: Manipulating Labelled Data
Description: Work with labelled data imported from 'SPSS'
or 'Stata' with 'haven' or 'foreign'. This package
provides useful functions to deal with "haven_labelled" and
"haven_labelled_spss" classes introduced by 'haven' package.
Author: Joseph Larmarange [aut, cre] ,
Daniel Ludecke [ctb],
Hadley Wickham [ctb],
Michal Bojanowski [ctb],
Francois Briatte [ctb]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between labelled versions 2.12.0 dated 2023-06-21 and 2.13.0 dated 2024-04-23
DESCRIPTION | 13 - MD5 | 105 +++++------ NAMESPACE | 5 NEWS.md | 18 + R/copy_labels.R | 49 +++-- R/is_prefixed.R | 3 R/lookfor.R | 115 +++++++----- R/na_values.R | 77 +++++--- R/recode.R | 32 +-- R/recode_if.R | 14 - R/remove_attributes.R | 3 R/remove_labels.R | 30 +-- R/retrocompatibility.R | 12 - R/tagged_na.R | 44 +++- R/to_character.R | 46 ++-- R/to_factor.R | 146 ++++++++------- R/to_labelled.R | 117 +++++++----- R/to_na.R | 6 R/update_with.R |only R/val_labels.R | 347 +++++++++++++++++++++++++------------ R/var_label.R | 35 ++- README.md | 2 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/intro_labelled.R | 46 ++-- inst/doc/intro_labelled.Rmd | 42 ++-- inst/doc/intro_labelled.html | 40 ++-- inst/doc/look_for.R | 2 inst/doc/look_for.html | 292 +++++++++++++------------------ inst/doc/missing_values.R | 2 inst/doc/packed_columns.Rmd | 2 inst/doc/packed_columns.html | 4 man/copy_labels.Rd | 12 - man/look_for.Rd | 4 man/na_values.Rd | 5 man/recode.haven_labelled.Rd | 7 man/recode_if.Rd | 2 man/remove_attributes.Rd | 3 man/sort_val_labels.Rd | 4 man/to_character.Rd | 5 man/to_factor.Rd | 15 - man/to_labelled.Rd | 32 +-- man/update_variable_labels_with.Rd |only man/val_labels.Rd | 51 ++++- man/var_label.Rd | 15 - tests/spelling.R | 3 tests/testthat/test-copy_labels.r | 4 tests/testthat/test-labelled.r | 50 ++++- tests/testthat/test-miscellanous.R | 2 tests/testthat/test-na_values.R | 21 +- tests/testthat/test-to_labelled.r | 35 +-- tests/testthat/test-update_with.r |only tests/testthat/test_lookfor.R | 13 - vignettes/intro_labelled.Rmd | 42 ++-- vignettes/packed_columns.Rmd | 2 55 files changed, 1148 insertions(+), 829 deletions(-)
Title: Inflators for Australian Policy Analysis
Description: Using Australian Bureau of Statistics indices, provides functions
that convert historical, nominal statistics to real, contemporary values
without worrying about date input quality, performance, or the ABS catalogue.
Author: Hugh Parsonage [aut, cre]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between grattanInflators versions 0.5.1 dated 2024-03-26 and 0.5.3 dated 2024-04-23
grattanInflators-0.5.1/grattanInflators/src/C_fastIDate.c |only grattanInflators-0.5.3/grattanInflators/DESCRIPTION | 6 grattanInflators-0.5.3/grattanInflators/MD5 | 22 - grattanInflators-0.5.3/grattanInflators/NEWS.md | 7 grattanInflators-0.5.3/grattanInflators/R/fast_as_idate.R | 16 grattanInflators-0.5.3/grattanInflators/inst/tinytest/test_cpi_inflator.R | 2 grattanInflators-0.5.3/grattanInflators/inst/tinytest/test_guess_format.R |only grattanInflators-0.5.3/grattanInflators/inst/tinytest/test_lf_inflator.R | 43 +- grattanInflators-0.5.3/grattanInflators/man/fast_as_idate.Rd | 79 ++- grattanInflators-0.5.3/grattanInflators/src/check_input.c | 2 grattanInflators-0.5.3/grattanInflators/src/grattanInflator.h | 1 grattanInflators-0.5.3/grattanInflators/src/idate_YearMonth.c | 203 +++++++++- grattanInflators-0.5.3/grattanInflators/src/init.c | 24 - 13 files changed, 303 insertions(+), 102 deletions(-)
More information about grattanInflators at CRAN
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Title: Estimation in Difference-in-Difference Designs with Multiple
Groups and Periods
Description: Estimation of event-study Difference-in-Difference (DID) estimators in designs with multiple groups and periods, and with a potentially non-binary treatment that may increase or decrease multiple times.
Author: Diego Ciccia [aut, cre],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Clement de Chaisemartin [aut]
Maintainer: Diego Ciccia <diego.ciccia@sciencespo.fr>
Diff between DIDmultiplegtDYN versions 1.0.5 dated 2024-03-01 and 1.0.8 dated 2024-04-23
DESCRIPTION | 8 +- MD5 | 27 +++--- NAMESPACE | 3 NEWS.md | 18 ++++ R/did_multiplegt_bootstrap.R | 13 ++- R/did_multiplegt_by_path.R |only R/did_multiplegt_dyn.R | 89 +++++++++++++++++----- R/did_multiplegt_dyn_core.R | 10 ++ R/did_multiplegt_dyn_design.R | 1 R/did_multiplegt_dyn_graph.R | 60 +++++++++------ R/did_multiplegt_main.R | 155 ++++++++++++++++++++++++++++++++------- R/print.R | 18 +++- R/progressBar.R | 7 + R/rnames.R |only man/did_multiplegt_dyn.Rd | 41 ++++++---- man/rnames.did_multiplegt_dyn.Rd |only 16 files changed, 338 insertions(+), 112 deletions(-)
More information about DIDmultiplegtDYN at CRAN
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Title: Variance Dispersion Graphs and Fraction of Design Space Plots
Description: Facilities for constructing variance dispersion graphs, fraction-
of-design-space plots and similar graphics for exploring the properties of
experimental designs. The design region is explored via random sampling, which
allows for more flexibility than traditional variance dispersion graphs. A
formula interface is leveraged to provide access to complex model formulae.
Graphics can be constructed simultaneously for multiple experimental designs
and/or multiple model formulae. Instead of using pointwise optimization to
find the minimum and maximum scaled prediction variance curves, which can be
inaccurate and time consuming, this package uses quantile regression as an
alternative.
Author: Pieter Schoonees [aut, cre, cph],
Niel le Roux [ctb]
Maintainer: Pieter Schoonees <schoonees@gmail.com>
Diff between vdg versions 1.2.2 dated 2022-07-07 and 1.2.3 dated 2024-04-23
vdg-1.2.2/vdg/R/vdg-package.R |only vdg-1.2.3/vdg/DESCRIPTION | 14 +++++++------- vdg-1.2.3/vdg/MD5 | 11 +++++------ vdg-1.2.3/vdg/build/partial.rdb |binary vdg-1.2.3/vdg/build/vignette.rds |binary vdg-1.2.3/vdg/inst/doc/vdg.pdf |binary vdg-1.2.3/vdg/man/vdg-package.Rd | 7 +------ 7 files changed, 13 insertions(+), 19 deletions(-)
More information about bayesMeanScale at CRAN
Permanent link
Title: Available Light Within the Water Column and Seafloor of Arctic
Fjords
Description: Satellite data collected between 2003 and 2022,
in conjunction with gridded bathymetric data (50-150 m resolution),
are used to estimate the irradiance reaching the bottom of a series of representative EU Arctic fjords.
An Earth System Science Data (ESSD) manuscript, Schlegel et al. (2023, in review),
that provides a detailed explanation of the methodology is currently in review.
Author: Bernard Gentili [aut],
Jean-Pierre Gattuso [aut] ,
Robert W. Schlegel [aut, cre]
Maintainer: Robert W. Schlegel <robert.schlegel@imev-mer.fr>
Diff between FjordLight versions 0.7.0 dated 2023-12-02 and 0.8 dated 2024-04-23
DESCRIPTION | 16 MD5 | 57 +-- NAMESPACE | 1 NEWS.md | 39 ++ R/fl_DownloadFjord.R | 40 +- R/fl_ListFjords.R | 15 R/fl_LoadFjord.R | 24 + R/flget_KPARMonthlyTS.R |only R/flget_PARbottomMonthlyTS.R | 90 ++-- R/flplot_KPARMonthlyTS.R |only R/flplot_PARbottomMonthlyTS.R | 2 R/flplot_climatology.R | 4 README.md | 11 build/vignette.rds |binary inst/CITATION |only inst/doc/fl_example.R | 114 +++++- inst/doc/fl_example.Rmd | 150 +++++++- inst/doc/fl_example.html | 455 +++++++++++++++++++------ inst/extdata/test_ClimSD.nc |only inst/extdata/test_MonthlyKpar.nc |only inst/extdata/test_YearlySD.nc |only man/fl_DownloadFjord.Rd | 19 - man/fl_ListFjords.Rd | 4 man/fl_LoadFjord.Rd | 16 man/flget_KPARMonthlyTS.Rd |only man/flplot_KPARMonthlyTS.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test-fl_DownloadFjord.R | 38 +- tests/testthat/test-fl_LoadFjord.R | 27 + tests/testthat/test-flget_KPARMonthlyTS.R |only tests/testthat/test-flget_PARbottomMonthlyTS.R | 2 tests/testthat/test-flget_Pfunction.R | 2 tests/testthat/test-flget_climatology.R | 2 vignettes/fl_example.Rmd | 150 +++++++- 34 files changed, 1031 insertions(+), 247 deletions(-)
Title: Modules for 'ShinyItemAnalysis'
Description: Package including additional modules for interactive
'ShinyItemAnalysis' application for the psychometric analysis of
educational tests, psychological assessments, health-related and other
types of multi-item measurements, or ratings from multiple raters.
Author: Patricia Martinkova [aut, cre]
,
Jan Netik [aut]
Maintainer: Patricia Martinkova <martinkova@cs.cas.cz>
Diff between SIAmodules versions 0.1.0 dated 2023-03-29 and 0.1.1 dated 2024-04-23
SIAmodules-0.1.0/SIAmodules/inst/modules |only SIAmodules-0.1.1/SIAmodules/DESCRIPTION | 15 +- SIAmodules-0.1.1/SIAmodules/MD5 | 54 +------- SIAmodules-0.1.1/SIAmodules/NAMESPACE | 2 SIAmodules-0.1.1/SIAmodules/NEWS.md |only SIAmodules-0.1.1/SIAmodules/R/sm_cat.R | 115 +++++++++++++----- SIAmodules-0.1.1/SIAmodules/R/sm_dif_c.R | 10 - SIAmodules-0.1.1/SIAmodules/R/sm_irr.R | 6 SIAmodules-0.1.1/SIAmodules/README.md | 5 SIAmodules-0.1.1/SIAmodules/build/partial.rdb |binary SIAmodules-0.1.1/SIAmodules/inst/sc/cat.R |only SIAmodules-0.1.1/SIAmodules/man/SIAmodules-package.Rd | 2 12 files changed, 121 insertions(+), 88 deletions(-)
Title: Marker-Based Cell Type Purification for Single-Cell Sequencing
Data
Description: A common bioinformatics task in single-cell data analysis is to purify a cell type or cell population of interest from heterogeneous datasets. 'scGate' automatizes marker-based purification of specific cell populations, without requiring training data or reference gene expression profiles. Briefly, 'scGate' takes as input: i) a gene expression matrix stored in a 'Seurat' object and ii) a “gating model” (GM), consisting of a set of marker genes that define the cell population of interest. The GM can be as simple as a single marker gene, or a combination of positive and negative markers. More complex GMs can be constructed in a hierarchical fashion, akin to gating strategies employed in flow cytometry. 'scGate' evaluates the strength of signature marker expression in each cell using the rank-based method 'UCell', and then performs k-nearest neighbor (kNN) smoothing by calculating the mean 'UCell' score across neighboring cells. kNN-smoothing aims at compensating for the large degree of s [...truncated...]
Author: Massimo Andreatta [aut, cre] ,
Ariel Berenstein [aut] ,
Josep Garnica [aut],
Santiago Carmona [aut]
Maintainer: Massimo Andreatta <massimo.andreatta@unil.ch>
Diff between scGate versions 1.6.0 dated 2023-11-06 and 1.6.2 dated 2024-04-23
DESCRIPTION | 12 ++-- MD5 | 16 +++--- NAMESPACE | 1 R/main.R | 35 ++++++++++--- R/utils.R | 100 +++++++++++++++++++++++++++++++++++++-- build/vignette.rds |binary inst/NEWS.Rd | 8 +++ man/combine_scGate_multiclass.Rd | 2 man/scGate.Rd | 8 ++- 9 files changed, 153 insertions(+), 29 deletions(-)
Title: Multivariate Polynomials with Rational Coefficients
Description: Symbolic calculation and evaluation of multivariate
polynomials with rational coefficients. This package is strongly
inspired by the 'spray' package. It provides a function to
compute Gröbner bases (reference <doi:10.1007/978-3-319-16721-3>).
The header file of the C++ code can be used by other packages. It
provides the templated class 'Qspray' that can be used to represent and
to deal with multivariate polynomials with another type of coefficients.
Author: Stephane Laurent [aut, cre],
Robin Hankin [ctb, cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between qspray versions 2.1.1 dated 2023-09-07 and 3.0.0 dated 2024-04-23
DESCRIPTION | 24 - MD5 | 113 ++++- NAMESPACE | 45 ++ NEWS.md | 33 + R/RcppExports.R | 20 - R/characteristicPolynomial.R |only R/creation.R |only R/evaluation.R |only R/groebner.R | 266 +++++++------ R/integrateOnSimplex.R |only R/internal.R | 96 ++++ R/qspray.R | 576 ++++++++--------------------- R/qsprayDivision.R |only R/queries.R |only R/show.R |only R/symmetricPolynomials.R |only R/transformation.R |only R/yacas.R | 48 +- README.md | 370 +++++++++++++++++-- configure | 12 inst/include |only man/ESFpoly.Rd | 4 man/HallInnerProduct.Rd |only man/MSFpoly.Rd | 2 man/MSPcombination.Rd |only man/PSFpoly.Rd |only man/PSPexpression.Rd |only man/as.function.qspray.Rd | 17 man/as.qspray.Rd | 3 man/changeVariables.Rd |only man/characteristicPolynomial.Rd |only man/collinearQsprays.Rd |only man/compactSymmetricQspray.Rd |only man/composeQspray.Rd |only man/dQspray.Rd | 9 man/derivQspray.Rd | 9 man/evalQspray.Rd | 6 man/getCoefficient.Rd |only man/getConstantTerm.Rd |only man/integratePolynomialOnSimplex.Rd | 2 man/isConstant.Rd |only man/isPolynomialOf.Rd |only man/isQone.Rd |only man/isQzero.Rd |only man/isSymmetricQspray.Rd |only man/isUnivariate.Rd |only man/numberOfTerms.Rd |only man/numberOfVariables.Rd |only man/orderedQspray.Rd |only man/permuteVariables.Rd |only man/qdivision.Rd | 12 man/qlone.Rd | 11 man/qone.Rd | 6 man/qsprayDivision.Rd |only man/qsprayMaker.Rd | 4 man/qspray_from_list.Rd |only man/qzero.Rd | 6 man/rQspray.Rd |only man/showMonomialOld.Rd |only man/showMonomialX1X2X3.Rd |only man/showMonomialXYZ.Rd |only man/showQspray.Rd |only man/showQsprayOption-set.Rd |only man/showQsprayX1X2X3.Rd |only man/showQsprayXYZ.Rd |only man/substituteQspray.Rd |only man/swapVariables.Rd |only src/Makevars.in | 2 src/Makevars.win | 3 src/RcppExports.cpp | 70 ++- src/division.cpp |only src/evaluation.cpp |only src/qspray.cpp | 577 ++---------------------------- tests/testthat/helper-00.R |only tests/testthat/test-HallInnerProduct.R |only tests/testthat/test-basic.R | 7 tests/testthat/test-collinear.R |only tests/testthat/test-composeQspray.R |only tests/testthat/test-division.R | 3 tests/testthat/test-getCoefficient.R |only tests/testthat/test-groebner.R |only tests/testthat/test-permuteVariables.R |only tests/testthat/test-show.R |only tests/testthat/test-substitute.R |only tests/testthat/test-symmetricPolynomial.R |only 85 files changed, 1119 insertions(+), 1237 deletions(-)
Title: Preparation, Checking and Post-Processing Data for PK/PD
Modeling
Description: Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem. Attention is paid to ensure consistency, traceability, and Nonmem compatibility of Data. Rigorously checks final Nonmem datasets. Implemented in 'data.table', but easily integrated with 'base' and 'tidyverse'.
Author: Philip Delff [aut, cre],
Eric Anderson [ctb]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMdata versions 0.1.5 dated 2024-02-21 and 0.1.6 dated 2024-04-23
DESCRIPTION | 16 ++-- MD5 | 71 +++++++++++------- NAMESPACE | 5 + NEWS.md | 102 ++++++++++++++++---------- R/NMcheckData.R | 72 ++++++++++-------- R/NMexpandDoses.R | 21 +++-- R/NMextractDataFile.R | 1 R/NMinfo.R | 12 +-- R/NMreadExt.R | 16 ++-- R/NMreadShk.R |only R/NMreadTab.R | 2 R/NMreadTabSlow.R |only R/NMscanData.R | 17 ---- R/NMwriteSection.R | 22 ++--- R/addOmegaCorr.R |only R/addTAPD.R | 45 ++++++----- R/colLabels.R | 1 R/dt2mat.R |only R/flagsAssign.R | 5 - R/fnAppend.R | 12 ++- R/mat2dt.R |only R/uniquePresent.R | 27 +++++- man/NMcheckData.Rd | 59 +++++++-------- man/NMinfo.Rd | 12 +-- man/NMreadExt.Rd | 14 +-- man/NMreadShk.Rd |only man/NMreadTabSlow.Rd |only man/NMwriteSection.Rd | 22 ++--- man/addOmegaCorr.Rd |only man/addTAPD.Rd | 30 +++---- man/colLabels.Rd | 3 man/dt2mat.Rd |only man/fnAppend.Rd | 2 man/mat2dt.Rd |only man/uniquePresent.Rd |only tests/testthat/testReference/NMreadExt_01.rds |only tests/testthat/testReference/NMreadExt_03.rds |only tests/testthat/testReference/NMreadExt_04.rds |only tests/testthat/testReference/NMreadShk_01.rds |only tests/testthat/testReference/addTAPD_04.rds |only tests/testthat/testReference/fnAppend_02.rds |only tests/testthat/test_NMreadShk.R |only tests/testthat/test_NMscanData.R | 11 +- tests/testthat/test_addTAPD.R | 40 +++++++++- tests/testthat/test_fnAppend.R | 14 +++ tests/testthat/test_uniquePresent.R |only 46 files changed, 394 insertions(+), 260 deletions(-)
More information about GregoryQuadrature at CRAN
Permanent link
Title: Functions for Extreme Value Distributions
Description: Extends simulation, distribution, quantile and density
functions to univariate and multivariate parametric extreme
value distributions, and provides fitting functions which
calculate maximum likelihood estimates for univariate and
bivariate maxima models, and for univariate and bivariate
threshold models.
Author: Alec Stephenson. Function fbvpot by Chris Ferro.
Maintainer: Alec Stephenson <alec_stephenson@hotmail.com>
Diff between evd versions 2.3-6.1 dated 2022-07-04 and 2.3-7 dated 2024-04-23
DESCRIPTION | 8 +-- MD5 | 14 ++--- R/mvdist.R | 91 ++++++++++++++++++++----------------- build/vignette.rds |binary inst/CHANGES | 16 ++++++ inst/CITATION | 15 ++---- inst/doc/Multivariate_Extremes.pdf |binary man/uccle.Rd | 4 - 8 files changed, 85 insertions(+), 63 deletions(-)
Title: Young Tableaux
Description: Deals with Young tableaux (field of combinatorics). For standard
Young tabeaux, performs enumeration, counting, random generation, the
Robinson-Schensted correspondence, and conversion to and from paths on
the Young lattice. Also performs enumeration and counting of
semistandard Young tableaux, enumeration of skew semistandard Young
tableaux, and computation of Kostka numbers.
Author: Stephane Laurent
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between syt versions 0.3.0 dated 2023-12-06 and 0.4.0 dated 2024-04-23
DESCRIPTION | 19 ++++----- MD5 | 51 ++++++++++++++++-------- NAMESPACE | 15 +++++++ NEWS.md | 15 +++++-- R/Kostka.R |only R/ballot.R | 10 ++-- R/dualsyt.R | 2 R/enumeration.R | 3 - R/hooks.R | 2 R/internal.R | 37 ++++++++++++----- R/isSYT.R |only R/skewTableaux.R |only R/ssyt.R | 78 ++++++++++++++----------------------- R/syt2matrix.R | 41 ++++++++++++++++--- R/tableaux.R |only man/KostkaNumber.Rd |only man/all_ssSkewTableaux.Rd |only man/all_ssytx.Rd | 3 - man/all_sytx.Rd | 3 - man/dualSkewTableau.Rd |only man/dualTableau.Rd |only man/isSSYT.Rd |only man/isSYT.Rd |only man/isSemistandardSkewTableau.Rd |only man/isSkewTableau.Rd |only man/isStandardSkewTableau.Rd |only man/prettySkewTableau.Rd |only man/prettyTableau.Rd |only man/syt2matrix.Rd | 4 + man/tableau2matrix.Rd |only man/tableauShape.Rd |only tests/testthat/test-Kostka.R |only tests/testthat/test-dual.R | 10 +++- tests/testthat/test-enumeration.R | 1 tests/testthat/test-skewTableaux.R |only tests/testthat/test-ssyt.R | 10 ++++ 36 files changed, 198 insertions(+), 106 deletions(-)
Title: Some Datetime Pickers for 'Shiny'
Description: Provides three types of datetime pickers for usage in a
'Shiny' UI. A datetime picker is an input field for selecting both a
date and a time.
Author: Stephane Laurent [aut, cre],
Wojciech Maj [cph] ),
Porinn [cph] ),
Dmitriy Kovalenko [cph] )
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between shinyDatetimePickers versions 1.1.0 dated 2023-08-07 and 1.2.0 dated 2024-04-23
DESCRIPTION | 8 MD5 | 19 NAMESPACE | 3 NEWS.md | 5 R/datetimeMaterialPicker.R | 24 - R/datetimePicker.R | 24 - R/datetimeSliderPicker.R | 24 - inst/www/datetimePicker/datetimePicker.js | 573 +++++++++++++++++++++++--- inst/www/datetimePicker/datetimePicker.js.map | 2 man/updateDatetimeMaterialPickerInput.Rd |only man/updateDatetimePickerInput.Rd |only man/updateDatetimeSliderPickerInput.Rd |only 12 files changed, 576 insertions(+), 106 deletions(-)
More information about shinyDatetimePickers at CRAN
Permanent link
Title: Mixed Model Association Test for GEne-Environment Interaction
Description: Use a 'glmmkin' class object (GMMAT package) from the null model to perform generalized linear mixed model-based single-variant and variant set main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020) <DOI:10.1002/gepi.22351>.
Author: Xinyu Wang [aut],
Han Chen [aut, cre],
Duy Pham [aut],
Kenneth Westerman [ctb],
Cong Pan [aut],
Eric Biggers [ctb, cph] ,
Tino Reichardt [ctb, cph] library),
Meta Platforms, Inc. and affiliates [cph] library)
Maintainer: Han Chen <han.chen.2@uth.tmc.edu>
Diff between MAGEE versions 1.3.2 dated 2023-11-17 and 1.4.0 dated 2024-04-23
DESCRIPTION | 8 - MD5 | 32 ++--- R/glmm.gei.R | 261 +++++++++++++++++++++++------------------ R/glmm.gei.meta.R | 36 ++--- inst/doc/MAGEE.Rnw | 25 +++ inst/doc/MAGEE.pdf |binary inst/extdata/meta1.txt | 2 inst/extdata/meta2.txt | 2 inst/extdata/meta3.txt | 2 inst/extdata/meta4.txt | 2 inst/extdata/meta5.txt | 2 inst/extdata/readme | 2 man/MAGEE-package.Rd | 4 man/glmm.gei.Rd | 22 ++- src/fitglmm.cpp | 257 ++++++++++++++-------------------------- tests/testthat/test_glmm.gei.R | 72 +++++------ vignettes/MAGEE.Rnw | 25 +++ 17 files changed, 380 insertions(+), 374 deletions(-)
Title: Kantorovich Distance Between Probability Measures
Description: Computes the Kantorovich distance between two probability
measures on a finite set. The Kantorovich distance is also known as
the Monge-Kantorovich distance or the first Wasserstein distance.
Author: Stephane Laurent
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between kantorovich versions 3.1.0 dated 2023-08-22 and 3.2.0 dated 2024-04-23
DESCRIPTION | 10 ++--- MD5 | 32 +++++++++--------- NEWS.md | 7 ++++ R/kantorovich_CVX.R | 27 +++++++-------- R/kantorovich_glpk.R | 33 +++++++++---------- R/kantorovich_lpsolve.R | 26 +++++++-------- R/kantorovich_ompr.R | 37 ++++++++++----------- inst/doc/kantorovich.R | 6 +-- inst/doc/kantorovich.html | 4 +- man/kantorovich_CVX.Rd | 14 ++++---- man/kantorovich_glpk.Rd | 21 ++++-------- man/kantorovich_lp.Rd | 14 ++++---- man/kantorovich_ompr.Rd | 72 +++++++++++++++++++++--------------------- tests/testthat/test-CVX.R | 2 - tests/testthat/test-glpk.R | 2 - tests/testthat/test-lpSolve.R | 4 +- tests/testthat/test-ompr.R | 2 - 17 files changed, 157 insertions(+), 156 deletions(-)
Title: Sensitivities of Prices of Financial Options and Implied
Volatilities
Description: Methods to calculate sensitivities of financial option prices for
European, geometric and arithmetic Asian, and American options, with various
payoff functions in the Black Scholes model, and in more general jump diffusion
models. A shiny app to interactively plot the results is included. Furthermore,
methods to compute implied volatilities are provided for a wide range of option
types and custom payoff functions. Classical formulas are implemented for
European options in the Black Scholes Model, as is presented in Hull, J. C.
(2017), Options, Futures, and Other Derivatives.
In the case of Asian options, Malliavin Monte Carlo Greeks are implemented, see
Hudde, A. & Rüschendorf, L. (2023). European and Asian Greeks for exponential
Lévy processes. <doi:10.1007/s11009-023-10014-5>. For American
options, the Binomial Tree Method is implemented, as is presented in Hull,
J. C. (2017).
Author: Anselm Hudde [aut, cre]
Maintainer: Anselm Hudde <anselmhudde@gmx.de>
Diff between greeks versions 1.3.5 dated 2024-03-03 and 1.4.2 dated 2024-04-23
DESCRIPTION | 6 - MD5 | 14 +- NEWS.md | 33 ++++-- R/Malliavin_Geometric_Asian_Greeks.R | 32 ++---- README.md | 2 tests/testthat/test-Binomial_American_Greeks.R | 9 + tests/testthat/test-Malliavin_European_Greeks.R | 29 +++--- tests/testthat/test-Malliavin_Geometric_Asian_Greeks.R | 81 +++++++---------- 8 files changed, 103 insertions(+), 103 deletions(-)
Title: Create Elegant Data Visualisations Using the Grammar of Graphics
Description: A system for 'declaratively' creating graphics, based on "The
Grammar of Graphics". You provide the data, tell 'ggplot2' how to map
variables to aesthetics, what graphical primitives to use, and it
takes care of the details.
Author: Hadley Wickham [aut] ,
Winston Chang [aut] ,
Lionel Henry [aut],
Thomas Lin Pedersen [aut, cre]
,
Kohske Takahashi [aut],
Claus Wilke [aut] ,
Kara Woo [aut] ,
Hiroaki Yutani [aut] ,
Dewey Dunnington [aut] ,
Teun van den Brand [aut] ,
Posit, PBC [cph, [...truncated...]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between ggplot2 versions 3.5.0 dated 2024-02-23 and 3.5.1 dated 2024-04-23
DESCRIPTION | 32 - MD5 | 432 +++++++++++++------------- NEWS.md | 48 ++ R/aes.R | 2 R/annotation.R | 17 - R/autolayer.R | 2 R/autoplot.R | 114 ++++++ R/axis-secondary.R | 10 R/bin.R | 8 R/coord-.R | 2 R/coord-flip.R | 13 R/coord-map.R | 20 + R/coord-polar.R | 12 R/coord-radial.R | 58 ++- R/coord-transform.R | 2 R/data.R | 2 R/docs_layer.R |only R/facet-.R | 4 R/facet-grid-.R | 6 R/facet-wrap.R | 6 R/fortify.R | 1 R/geom-.R | 2 R/geom-bar.R | 3 R/geom-bin2d.R | 4 R/geom-blank.R | 1 R/geom-boxplot.R | 6 R/geom-count.R | 4 R/geom-density.R | 4 R/geom-density2d.R | 4 R/geom-dotplot.R | 2 R/geom-errorbar.R | 2 R/geom-errorbarh.R | 2 R/geom-function.R | 16 R/geom-hex.R | 7 R/geom-histogram.R | 4 R/geom-path.R | 9 R/geom-point.R | 30 + R/geom-quantile.R | 4 R/geom-raster.R | 4 R/geom-sf.R | 8 R/geom-smooth.R | 4 R/geom-text.R | 15 R/geom-tile.R | 4 R/geom-violin.R | 6 R/ggproto.R | 12 R/guide-axis-logticks.R | 59 ++- R/guide-bins.R | 12 R/guide-colorbar.R | 2 R/guide-colorsteps.R | 55 +-- R/guide-legend.R | 18 + R/labels.R | 3 R/layer.R | 48 ++ R/plot-build.R | 18 - R/plot.R | 2 R/position-.R | 2 R/position-jitter.R | 4 R/position-jitterdodge.R | 2 R/save.R | 3 R/scale-.R | 25 + R/scale-alpha.R | 9 R/scale-binned.R | 2 R/scale-brewer.R | 2 R/scale-colour.R | 2 R/scale-continuous.R | 2 R/scale-date.R | 4 R/scale-discrete-.R | 4 R/scale-gradient.R | 2 R/scale-grey.R | 4 R/scale-hue.R | 6 R/scale-identity.R | 2 R/scale-linetype.R | 4 R/scale-linewidth.R | 2 R/scale-manual.R | 4 R/scale-shape.R | 4 R/scale-size.R | 12 R/scale-steps.R | 11 R/stat-.R | 5 R/stat-boxplot.R | 2 R/stat-contour.R | 8 R/stat-count.R | 2 R/stat-smooth.R | 5 R/stat-summary-bin.R | 2 R/theme-defaults.R | 3 R/theme-elements.R | 5 R/theme.R | 11 R/utilities-help.R | 10 R/utilities-resolution.R | 10 R/utilities.R | 6 README.md | 4 inst/doc/extending-ggplot2.R | 8 inst/doc/extending-ggplot2.Rmd | 8 inst/doc/extending-ggplot2.html | 21 - inst/doc/ggplot2-in-packages.R | 24 - inst/doc/ggplot2-in-packages.Rmd | 24 - inst/doc/ggplot2-in-packages.html | 24 - inst/doc/ggplot2-specs.Rmd | 3 inst/doc/ggplot2-specs.html | 14 man/aes_colour_fill_alpha.Rd | 4 man/aes_group_order.Rd | 4 man/aes_linetype_size_shape.Rd | 4 man/aes_position.Rd | 4 man/annotate.Rd | 34 +- man/autolayer.Rd | 6 man/automatic_plotting.Rd |only man/autoplot.Rd | 6 man/binned_scale.Rd | 10 man/borders.Rd | 32 + man/continuous_scale.Rd | 4 man/coord_flip.Rd | 14 man/coord_map.Rd | 3 man/coord_polar.Rd | 17 - man/coord_trans.Rd | 3 man/discrete_scale.Rd | 6 man/facet_grid.Rd | 3 man/facet_wrap.Rd | 3 man/fortify.Rd | 6 man/geom_abline.Rd | 31 + man/geom_bar.Rd | 52 ++- man/geom_bin_2d.Rd | 53 ++- man/geom_blank.Rd | 63 +++ man/geom_boxplot.Rd | 53 ++- man/geom_contour.Rd | 82 +++- man/geom_count.Rd | 53 ++- man/geom_density.Rd | 53 ++- man/geom_density_2d.Rd | 20 - man/geom_dotplot.Rd | 47 ++ man/geom_errorbarh.Rd | 63 +++ man/geom_function.Rd | 98 ++++- man/geom_hex.Rd | 52 ++- man/geom_histogram.Rd | 53 ++- man/geom_jitter.Rd | 63 +++ man/geom_linerange.Rd | 63 +++ man/geom_map.Rd | 47 ++ man/geom_path.Rd | 63 +++ man/geom_point.Rd | 63 +++ man/geom_polygon.Rd | 63 +++ man/geom_qq.Rd | 62 +++ man/geom_quantile.Rd | 53 ++- man/geom_ribbon.Rd | 82 +++- man/geom_rug.Rd | 63 +++ man/geom_segment.Rd | 63 +++ man/geom_smooth.Rd | 58 ++- man/geom_spoke.Rd | 63 +++ man/geom_text.Rd | 69 +++- man/geom_tile.Rd | 63 +++ man/geom_violin.Rd | 53 ++- man/ggplot.Rd | 3 man/ggplot2-ggproto.Rd | 15 man/ggplot_build.Rd | 2 man/ggplot_gtable.Rd | 2 man/ggproto.Rd | 15 man/ggsave.Rd | 3 man/ggsf.Rd | 82 +++- man/ggtheme.Rd | 3 man/guide_axis_logticks.Rd | 29 + man/guide_colourbar.Rd | 2 man/guide_coloursteps.Rd | 2 man/guide_legend.Rd | 2 man/labs.Rd | 3 man/layer.Rd | 58 ++- man/layer_geoms.Rd |only man/layer_positions.Rd |only man/layer_sf.Rd | 49 ++ man/layer_stats.Rd |only man/position_dodge.Rd | 2 man/position_identity.Rd | 2 man/position_nudge.Rd | 2 man/position_stack.Rd | 2 man/register_theme_elements.Rd | 3 man/resolution.Rd | 5 man/scale_alpha.Rd | 9 man/scale_binned.Rd | 9 man/scale_brewer.Rd | 2 man/scale_colour_continuous.Rd | 2 man/scale_colour_discrete.Rd | 3 man/scale_continuous.Rd | 3 man/scale_date.Rd | 4 man/scale_discrete.Rd | 7 man/scale_gradient.Rd | 9 man/scale_grey.Rd | 15 man/scale_hue.Rd | 15 man/scale_identity.Rd | 2 man/scale_linetype.Rd | 7 man/scale_linewidth.Rd | 3 man/scale_manual.Rd | 10 man/scale_shape.Rd | 7 man/scale_size.Rd | 16 man/scale_steps.Rd | 35 -- man/sec_axis.Rd | 2 man/stat_ecdf.Rd | 62 +++ man/stat_ellipse.Rd | 62 +++ man/stat_identity.Rd | 62 +++ man/stat_sf_coordinates.Rd | 64 +++ man/stat_summary.Rd | 71 +++- man/stat_summary_2d.Rd | 62 +++ man/stat_unique.Rd | 62 +++ man/theme.Rd | 7 man/txhousing.Rd | 2 tests/testthat/_snaps/annotate.md | 4 tests/testthat/_snaps/coord-map.md | 4 tests/testthat/_snaps/coord-polar.md | 4 tests/testthat/_snaps/guides.md | 2 tests/testthat/_snaps/layer.md | 2 tests/testthat/_snaps/prohibited-functions.md |only tests/testthat/_snaps/sec-axis.md | 2 tests/testthat/test-annotate.R | 6 tests/testthat/test-coord-map.R | 6 tests/testthat/test-coord-polar.R | 22 + tests/testthat/test-coord-train.R | 2 tests/testthat/test-coord_sf.R | 2 tests/testthat/test-draw-key.R | 5 tests/testthat/test-guides.R | 51 ++- tests/testthat/test-prohibited-functions.R | 27 + tests/testthat/test-scales.R | 14 tests/testthat/test-stat-bin.R | 7 tests/testthat/test-theme.R | 2 tests/testthat/test-utilities.R | 3 vignettes/extending-ggplot2.Rmd | 8 vignettes/ggplot2-in-packages.Rmd | 24 - vignettes/ggplot2-specs.Rmd | 3 220 files changed, 3395 insertions(+), 1108 deletions(-)
Title: Interpret Tree Ensembles
Description: For tree ensembles such as random forests, regularized random forests and gradient boosted trees, this package provides functions for: extracting, measuring and pruning rules; selecting a compact rule set; summarizing rules into a learner; calculating frequent variable interactions; formatting rules in latex code. Reference: Interpreting tree ensembles with inTrees (Houtao Deng, 2019, <doi:10.1007/s41060-018-0144-8>).
Author: Houtao Deng [aut, cre],
Xin Guan [aut],
Vadim Khotilovich [aut]
Maintainer: Houtao Deng <softwaredeng@gmail.com>
Diff between inTrees versions 1.3 dated 2022-05-31 and 1.4 dated 2024-04-23
inTrees-1.3/inTrees/R/XGB2List.R |only inTrees-1.4/inTrees/DESCRIPTION | 8 ++++---- inTrees-1.4/inTrees/MD5 | 8 ++++---- inTrees-1.4/inTrees/NEWS | 5 ++++- inTrees-1.4/inTrees/R/XGB2LIST.R |only inTrees-1.4/inTrees/man/selectRuleRRF.Rd | 1 + 6 files changed, 13 insertions(+), 9 deletions(-)
Title: Antarctic Spatial Data Manipulation
Description: Loads and creates spatial data, including layers and tools that are relevant
to the activities of the Commission for the Conservation of Antarctic Marine Living
Resources. Provides two categories of functions: load functions and create functions.
Load functions are used to import existing spatial layers from the online CCAMLR GIS
such as the ASD boundaries. Create functions are used to create layers from user data
such as polygons and grids.
Author: Stephane Thanassekos [aut, cre],
Keith Reid [aut],
Lucy Robinson [aut],
Michael D. Sumner [ctb],
Roger Bivand [ctb]
Maintainer: Stephane Thanassekos <stephane.thanassekos@ccamlr.org>
Diff between CCAMLRGIS versions 4.0.7 dated 2024-02-05 and 4.0.8 dated 2024-04-23
DESCRIPTION | 8 - MD5 | 58 ++++---- NAMESPACE | 2 NEWS.md | 5 R/CCAMLRGIS-package.R | 1 R/add_Cscale.R | 2 R/add_Legend.R |only R/add_RefGrid.R | 2 R/add_col.R | 3 R/add_labels.R | 2 R/create.R | 11 - R/create_Arrow.R | 3 R/create_Hashes.R |only R/get_iso_polys.R | 111 +++++++++------- README.md | 317 +++++++++++++++++++++++++++++++++++++++-------- build/vignette.rds |binary inst/doc/CCAMLRGIS.html | 4 man/CCAMLRGIS-package.Rd | 1 man/add_Cscale.Rd | 2 man/add_Legend.Rd |only man/add_RefGrid.Rd | 2 man/add_col.Rd | 3 man/add_labels.Rd | 2 man/create_Arrow.Rd | 3 man/create_Hashes.Rd |only man/create_Lines.Rd | 2 man/create_Points.Rd | 2 man/create_PolyGrids.Rd | 3 man/create_Polys.Rd | 2 man/create_Stations.Rd | 2 man/figures |only man/get_iso_polys.Rd | 46 ++++-- 32 files changed, 428 insertions(+), 171 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-08 0.7.3