Title: Fast Permutation Based Two Sample Tests
Description: Fast randomization based two sample tests.
Testing the hypothesis that two samples come from the same distribution using randomization to create p-values. Included tests are: Kolmogorov-Smirnov, Kuiper, Cramer-von Mises, Anderson-Darling, Wasserstein, and DTS. The default test (two_sample) is based on the DTS test statistic, as it is the most powerful, and thus most useful to most users.
The DTS test statistic builds on the Wasserstein distance by using a weighting scheme like that of Anderson-Darling. See the companion paper at <arXiv:2007.01360> or <https://codowd.com/public/DTS.pdf> for details of that test statistic, and non-standard uses of the package (parallel for big N, weighted observations, one sample tests, etc). We also include the permutation scheme to make test building simple for others.
Author: Connor Dowd [aut, cre]
Maintainer: Connor Dowd <cd@codowd.com>
Diff between twosamples versions 1.2.0 dated 2022-06-06 and 2.0.0 dated 2022-07-11
twosamples-1.2.0/twosamples/R/Extras/leftover.R |only twosamples-1.2.0/twosamples/R/RcppExports.R |only twosamples-1.2.0/twosamples/R/permutation_builder.R |only twosamples-1.2.0/twosamples/man/order_stl.Rd |only twosamples-1.2.0/twosamples/src/RcppExports.cpp |only twosamples-1.2.0/twosamples/src/rcpp_test_functions.cpp |only twosamples-2.0.0/twosamples/DESCRIPTION | 10 twosamples-2.0.0/twosamples/MD5 | 46 +- twosamples-2.0.0/twosamples/NAMESPACE | 7 twosamples-2.0.0/twosamples/NEWS.md | 32 + twosamples-2.0.0/twosamples/R/Extras/test_stats_R.R | 90 +++- twosamples-2.0.0/twosamples/R/class.R |only twosamples-2.0.0/twosamples/R/cpp11.R |only twosamples-2.0.0/twosamples/R/documentation.R | 153 ++++++- twosamples-2.0.0/twosamples/R/misc.R |only twosamples-2.0.0/twosamples/R/two_samples.R | 41 + twosamples-2.0.0/twosamples/README.md | 212 +++++++--- twosamples-2.0.0/twosamples/TODO |only twosamples-2.0.0/twosamples/man/ad_test.Rd | 31 - twosamples-2.0.0/twosamples/man/combine.twosamples.Rd |only twosamples-2.0.0/twosamples/man/cvm_test.Rd | 31 - twosamples-2.0.0/twosamples/man/figures/example1-1.png |only twosamples-2.0.0/twosamples/man/ks_test.Rd | 31 - twosamples-2.0.0/twosamples/man/kuiper_test.Rd | 39 + twosamples-2.0.0/twosamples/man/permutation_test_builder.Rd | 39 + twosamples-2.0.0/twosamples/man/plot.twosamples.Rd |only twosamples-2.0.0/twosamples/man/two_sample.Rd | 40 + twosamples-2.0.0/twosamples/man/twosamples_class.Rd |only twosamples-2.0.0/twosamples/man/wass_test.Rd | 31 - twosamples-2.0.0/twosamples/src/cpp11.cpp |only twosamples-2.0.0/twosamples/src/stat_functions.cpp |only twosamples-2.0.0/twosamples/tests/testthat/test-two_samples.R | 34 + 32 files changed, 646 insertions(+), 221 deletions(-)
Title: Morphological Analysis for Japanese
Description: Supports morphological analysis for Japanese by using 'MeCab'.
Can input data.frame and obtain all results of 'MeCab' and row number of
original data.frame as a text id.
Author: Toshikazu Matsumura [aut, cre]
Maintainer: Toshikazu Matsumura <matutosi@gmail.com>
Diff between moranajp versions 0.9.4 dated 2022-05-06 and 0.9.5 dated 2022-07-11
moranajp-0.9.4/moranajp/R/sysdata.rda |only moranajp-0.9.4/moranajp/tools/etc.R |only moranajp-0.9.4/moranajp/tools/example.r |only moranajp-0.9.5/moranajp/DESCRIPTION | 11 moranajp-0.9.5/moranajp/MD5 | 67 +++- moranajp-0.9.5/moranajp/NAMESPACE | 15 + moranajp-0.9.5/moranajp/NEWS.md | 11 moranajp-0.9.5/moranajp/R/bigram.R |only moranajp-0.9.5/moranajp/R/cleaning.R |only moranajp-0.9.5/moranajp/R/data.R | 176 ++++++++++++ moranajp-0.9.5/moranajp/R/make_group.R | 23 - moranajp-0.9.5/moranajp/R/moranajp.R | 56 ++- moranajp-0.9.5/moranajp/R/utils.R | 10 moranajp-0.9.5/moranajp/R/utils_id.R |only moranajp-0.9.5/moranajp/build/vignette.rds |binary moranajp-0.9.5/moranajp/data/neko_chamame.rda |only moranajp-0.9.5/moranajp/data/neko_mecab.rda |only moranajp-0.9.5/moranajp/data/review.rda |only moranajp-0.9.5/moranajp/data/review_chamame.rda |only moranajp-0.9.5/moranajp/data/review_mecab.rda |only moranajp-0.9.5/moranajp/data/stop_words.rda |only moranajp-0.9.5/moranajp/data/synonym.rda |only moranajp-0.9.5/moranajp/inst/doc/moranajp.R | 3 moranajp-0.9.5/moranajp/inst/doc/moranajp.Rmd | 3 moranajp-0.9.5/moranajp/inst/doc/moranajp.html | 243 ++++++++--------- moranajp-0.9.5/moranajp/man/add_series_no.Rd | 4 moranajp-0.9.5/moranajp/man/clean_up.Rd |only moranajp-0.9.5/moranajp/man/draw_bigram_network.Rd |only moranajp-0.9.5/moranajp/man/make_groups.Rd | 17 - moranajp-0.9.5/moranajp/man/moranajp_all.Rd | 18 + moranajp-0.9.5/moranajp/man/neko.Rd | 5 moranajp-0.9.5/moranajp/man/neko_chamame.Rd |only moranajp-0.9.5/moranajp/man/neko_mecab.Rd |only moranajp-0.9.5/moranajp/man/review.Rd |only moranajp-0.9.5/moranajp/man/review_chamame.Rd |only moranajp-0.9.5/moranajp/man/review_mecab.Rd |only moranajp-0.9.5/moranajp/man/stop_words.Rd |only moranajp-0.9.5/moranajp/man/synonym.Rd |only moranajp-0.9.5/moranajp/man/text_id_with_break.Rd |only moranajp-0.9.5/moranajp/tests/testthat/test-moranajp.R | 2 moranajp-0.9.5/moranajp/tools/cran-comments_old.md |only moranajp-0.9.5/moranajp/tools/neko.csv |only moranajp-0.9.5/moranajp/tools/neko.txt |only moranajp-0.9.5/moranajp/tools/review.csv |only moranajp-0.9.5/moranajp/tools/review.txt |only moranajp-0.9.5/moranajp/tools/review_2.txt |only moranajp-0.9.5/moranajp/tools/sjis.txt |only moranajp-0.9.5/moranajp/tools/stop_words.txt |only moranajp-0.9.5/moranajp/tools/synonym.txt |only moranajp-0.9.5/moranajp/tools/utf8.txt |only moranajp-0.9.5/moranajp/vignettes/moranajp.Rmd | 3 51 files changed, 475 insertions(+), 192 deletions(-)
More information about RobustRankAggreg at CRAN
Permanent link
Title: Inbreeding-Purging Estimation in Pedigreed Populations
Description: Inbreeding-purging analysis of pedigreed populations, including the computation of the inbreeding coefficient, partial, ancestral and purged inbreeding coefficients, and measures of the opportunity of purging related to the individual reduction of inbreeding load.
In addition, functions to calculate the effective population size and other parameters relevant to population genetics are included.
See López-Cortegano E. (2021) <doi:10.1093/bioinformatics/btab599>.
Author: Eugenio Lopez-Cortegano [aut, cre]
Maintainer: Eugenio Lopez-Cortegano <elcortegano@gmail.com>
Diff between purgeR versions 1.4 dated 2021-12-14 and 1.5 dated 2022-07-11
purgeR-1.4/purgeR/man/evaluate.Rd |only purgeR-1.4/purgeR/man/rename.Rd |only purgeR-1.4/purgeR/src/preProcessing.cpp |only purgeR-1.5/purgeR/DESCRIPTION | 10 ++-- purgeR-1.5/purgeR/MD5 | 37 ++++++++---------- purgeR-1.5/purgeR/NEWS.md | 5 ++ purgeR-1.5/purgeR/R/RcppExports.R | 28 ------------- purgeR-1.5/purgeR/R/check.R | 22 ++++++---- purgeR-1.5/purgeR/R/clean.R | 16 ++++++- purgeR-1.5/purgeR/R/rename.R | 20 ++++++++- purgeR-1.5/purgeR/build/vignette.rds |binary purgeR-1.5/purgeR/data/arrui.rda |binary purgeR-1.5/purgeR/data/atlas.rda |binary purgeR-1.5/purgeR/data/dama.rda |binary purgeR-1.5/purgeR/data/darwin.rda |binary purgeR-1.5/purgeR/data/dorcas.rda |binary purgeR-1.5/purgeR/inst/doc/ip.html | 8 ++- purgeR-1.5/purgeR/inst/doc/purgeR-tutorial.html | 9 ++-- purgeR-1.5/purgeR/man/ped_clean.Rd | 2 purgeR-1.5/purgeR/src/RcppExports.cpp | 29 -------------- purgeR-1.5/purgeR/tests/testthat/test_preprocessing.R | 6 +- 21 files changed, 85 insertions(+), 107 deletions(-)
Title: Embedding and Clustering with Alignment for Spatial Datasets
Description: An efficient data integration method is provided for multiple spatial transcriptomics data with non-cluster-relevant effects such as the complex batch effects. It unifies spatial factor analysis simultaneously with spatial clustering and embedding alignment, requiring only partially shared cell/domain clusters across datasets. More details can be referred to Wei Liu, et al. (2022) <doi:10.1101/2022.06.26.497672>.
Author: Wei Liu [aut, cre],
Yi Yang [aut],
Jin Liu [aut]
Maintainer: Wei Liu <wei.liu@duke-nus.edu.sg>
Diff between PRECAST versions 1.1 dated 2022-06-29 and 1.2 dated 2022-07-11
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/SetClass.R | 4 ++-- R/Visualization.R | 19 ++++++++++++++++--- R/main.R | 2 +- README.md | 2 +- inst/doc/PRECAST.Simu.html | 4 ++-- man/ICM.EM_structure.Rd | 3 ++- man/idrsc.Rd | 3 ++- man/plot_scatter.Rd | 8 ++++---- 10 files changed, 43 insertions(+), 28 deletions(-)
Title: Public Economic Data and Quantitative Analysis
Description: Provides an interface to access public economic and financial data for
economic research and quantitative analysis. The data sources including
NBS, FRED, 163, Sina, Eastmoney and etc. It also provides quantitative
functions for trading strategies based on the 'data.table', 'TTR',
'PerformanceAnalytics' and etc packages.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>
Diff between pedquant versions 0.1.9 dated 2022-05-02 and 0.2.0 dated 2022-07-11
pedquant-0.1.9/pedquant/inst/extdata/md_3index.R |only pedquant-0.1.9/pedquant/inst/extdata/pq_backtest.R |only pedquant-0.2.0/pedquant/DESCRIPTION | 12 - pedquant-0.2.0/pedquant/MD5 | 49 ++--- pedquant-0.2.0/pedquant/NAMESPACE | 9 + pedquant-0.2.0/pedquant/NEWS.md | 8 pedquant-0.2.0/pedquant/R/func_date.R | 180 --------------------- pedquant-0.2.0/pedquant/R/func_helper.R | 63 +++++-- pedquant-0.2.0/pedquant/R/md_0query.R | 2 pedquant-0.2.0/pedquant/R/md_stock1_163.R | 10 - pedquant-0.2.0/pedquant/R/md_stock_adj.R | 29 ++- pedquant-0.2.0/pedquant/R/pq_addti.R | 62 ++++++- pedquant-0.2.0/pedquant/R/pq_freq.R | 6 pedquant-0.2.0/pedquant/R/pq_opr.R | 148 ++++++++++++++--- pedquant-0.2.0/pedquant/R/pq_orders.R |only pedquant-0.2.0/pedquant/R/pq_performance.R | 18 ++ pedquant-0.2.0/pedquant/R/pq_plot2.R | 135 ++++++++++----- pedquant-0.2.0/pedquant/R/pq_portfolio.R | 110 ++++++++---- pedquant-0.2.0/pedquant/R/pq_return.R | 71 +++++--- pedquant-0.2.0/pedquant/README.md | 31 +++ pedquant-0.2.0/pedquant/man/crossover.Rd |only pedquant-0.2.0/pedquant/man/interval.Rd |only pedquant-0.2.0/pedquant/man/md_stock_adjust.Rd | 12 - pedquant-0.2.0/pedquant/man/pq_addti.Rd | 4 pedquant-0.2.0/pedquant/man/pq_opr.Rd | 14 - pedquant-0.2.0/pedquant/man/pq_plot.Rd | 21 +- pedquant-0.2.0/pedquant/man/pq_portfolio.Rd | 48 +++-- pedquant-0.2.0/pedquant/man/pq_return.Rd | 22 +- 28 files changed, 631 insertions(+), 433 deletions(-)
Title: Nonparametric Probability Density Estimator
Description: Farmer, J., D. Jacobs (2108) <DOI:10.1371/journal.pone.0196937>. A multivariate nonparametric density estimator based on the maximum-entropy method. Accurately predicts a probability density function (PDF) for random data using a novel iterative scoring function to determine the best fit without overfitting to the sample.
Author: Jenny Farmer <jfarmer@carolina.rr.com> and Donald Jacobs <djacobs1@uncc.ecu>
Maintainer: Jenny Farmer <jfarmer@carolina.rr.com>
Diff between PDFEstimator versions 3.2.1 dated 2022-03-30 and 4.0 dated 2022-07-11
DESCRIPTION | 16 +-- MD5 | 55 ++++++----- NAMESPACE | 8 + R/approximatePoints.R | 2 R/estimatePDF.R | 9 + R/estimatePDFmv.R |only R/plot2d.R |only R/plot3d.R |only R/summary.R | 33 ++++++ build/partial.rdb |binary man/PDFEstimator-package.Rd | 2 man/approximatePoints.Rd | 21 ++-- man/estimatePDF.Rd | 2 man/estimatePDFmv.Rd |only man/plot2d.Rd |only man/plot3d.Rd |only src/InputData.cpp | 56 ++--------- src/InputData.h | 7 - src/InputParameters.cpp | 28 +---- src/InputParameters.h | 9 - src/JointProbability.cpp |only src/JointProbability.h |only src/MinimizeScore.cpp | 56 ++++++----- src/MinimizeScore.h | 5 - src/Score.cpp | 8 - src/Score.h | 10 -- src/ScoreQZ.cpp | 5 - src/ScoreQZ.h | 2 src/Variable.cpp |only src/Variable.h |only src/WriteResults.cpp | 217 ++++++++++++++++++++------------------------ src/WriteResults.h | 7 + src/callPDF.cpp | 66 ++++++------- src/mvPDFMain.cpp |only 34 files changed, 302 insertions(+), 322 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis and supporting Schwarzer et al. (2015) <DOI:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <DOI:10.1002/jrsm.1058>;
- net heat plot and design-based decomposition of Cochran's Q according to Krahn et al. (2013) <DOI:10.1186/1471-2288-13-35>;
- measures characterizing the flow of evidence between two treatments by König et al. (2013) <DOI:10.1002/sim.6001>;
- ranking of treatments (frequentist analogue of SUCRA) according to Rücker & Schwarzer (2015) <DOI:10.1186/s12874-015-0060-8>;
- partial order of treatment rankings ('poset') and Hasse diagram for 'poset' (Carlsen & Bruggemann, 2014) <DOI:10.1002/cem.2569>; (Rücker & Schwarzer, 2017) <DOI:10.1002/jrsm.1270>;
- split direct and indirect evidence to check consistency (Dias et al., 2010) <DOI:10.1002/sim.3767>, (Efthimiou et al., 2019) <DOI:10.1002/sim.8158>;
- league table with network meta-analysis results;
- additive network meta-analysis for combinations of treatments (Rücker et al., 2020) <DOI:10.1002/bimj.201800167>;
- network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) <DOI:10.1002/sim.8158>;
- 'comparison-adjusted' funnel plot (Chaimani & Salanti, 2012) <DOI:10.1002/jrsm.57>;
- automated drawing of network graphs described in Rücker & Schwarzer (2016) <DOI:10.1002/jrsm.1143>;
- rankograms and ranking by SUCRA;
- contribution matrix as described in Papakonstantinou et al. (2018) <DOI:10.12688/f1000research.14770.3> and Davies et al. (2021) <arXiv:2107.02886>.
Author: Gerta Ruecker [aut] ,
Ulrike Krahn [aut],
Jochem Koenig [aut] ,
Orestis Efthimiou [aut] ,
Annabel Davies [aut] ,
Theodoros Papakonstantinou [aut]
,
Guido Schwarzer [aut, cre]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between netmeta versions 2.1-0 dated 2022-01-20 and 2.5-0 dated 2022-07-11
DESCRIPTION | 14 MD5 | 305 +++++++------- NAMESPACE | 4 NEWS.md | 73 +++ R/Baker2009.R | 5 R/Dogliotti2014.R | 2 R/Dong2013.R | 4 R/Franchini2012.R | 19 R/Gurusamy2011.R | 4 R/Linde2015.R | 13 R/Linde2016.R | 8 R/Senn2013.R | 10 R/Stowe2010.R | 7 R/Woods2010.R | 4 R/as.data.frame.netmeta.R | 11 R/bySummary.R | 19 R/comptrts.R |only R/contribution.matrix.R | 4 R/createC.R | 2 R/decomp.design.R | 9 R/designs.R | 5 R/dietaryfat.R | 17 R/direct.indirect.R |only R/discomb.R | 364 +++++++++------- R/forest.netbind.R | 105 ++-- R/forest.netcomb.R | 50 +- R/forest.netcomparison.R | 31 - R/forest.netcomplex.R | 31 - R/forest.netmeta.R | 107 ++-- R/forest.netsplit.R | 90 ++-- R/funnel.netmeta.R | 33 - R/hasse.R | 36 - R/hatmatrix.R | 160 +++---- R/invmat.R | 6 R/mat2dat.split.R |only R/mat2dat.table.R |only R/meta-aux.R | 27 - R/meta-chk.R | 18 R/meta-het.R | 10 R/metabias.netmeta.R | 17 R/netbind.R | 187 ++++---- R/netcomb.R | 400 +++++++++--------- R/netcomparison.R | 138 +++--- R/netcomplex.R | 128 +++-- R/netconnection.R | 67 +-- R/netcontrib.R | 80 +-- R/netdistance.R | 2 R/netgraph.R | 21 R/netgraph.discomb.R | 4 R/netgraph.netcomb.R | 3 R/netgraph.netconnection.R | 91 +++- R/netgraph.netimpact.R | 11 R/netgraph.netmeta.R | 96 ++-- R/netheat.R | 4 R/netimpact.R | 39 - R/netleague.R | 318 +++++++++----- R/netmatrix.R | 29 - R/netmeasures.R | 20 R/netmeta-internal.R | 21 R/netmeta-package.R | 4 R/netmeta.R | 412 ++++++++++-------- R/netmetabin.R | 324 ++++++++------ R/netpairwise.R | 32 - R/netposet.R | 216 ++++----- R/netrank.R | 153 +++---- R/netsplit.R | 911 +++++++++++------------------------------- R/nettable.R |only R/nettable_internal.R |only R/nma.krahn.R | 332 ++++++++------- R/nma.ruecker.R | 4 R/pairwise.R | 125 +++-- R/plot.netposet.R | 45 -- R/plot.netrank.R | 143 +++--- R/plot.rankogram.R | 21 R/print.decomp.design.R | 28 - R/print.netbind.R | 34 - R/print.netcomb.R | 61 +- R/print.netimpact.R | 75 +-- R/print.netmeta.R | 177 +++----- R/print.summary.netcomb.R | 33 - R/print.summary.netmeta.R | 112 ++--- R/rankogram.R | 104 ++-- R/ranksampling.R | 8 R/setseq.R | 8 R/sidde.R |only R/smokingcessation.R | 8 R/sortprop.R |only R/subset.pairwise.R |only R/summary.netcomb.R | 111 ++--- R/summary.netmeta.R | 74 +-- R/treats.R | 4 R/updateversion.R | 296 +++++++++++++ man/Baker2009.Rd | 5 man/Dogliotti2014.Rd | 2 man/Dong2013.Rd | 4 man/Franchini2012.Rd | 19 man/Gurusamy2011.Rd | 4 man/Linde2015.Rd | 13 man/Linde2016.Rd | 8 man/Senn2013.Rd | 10 man/Stowe2010.Rd | 7 man/Woods2010.Rd | 4 man/as.data.frame.netmeta.Rd | 3 man/decomp.design.Rd | 8 man/dietaryfat.Rd | 17 man/discomb.Rd | 122 ++--- man/forest.netbind.Rd | 24 - man/forest.netcomb.Rd | 29 - man/forest.netcomparison.Rd | 12 man/forest.netcomplex.Rd | 12 man/forest.netmeta.Rd | 57 +- man/forest.netsplit.Rd | 17 man/funnel.netmeta.Rd | 18 man/hasse.Rd | 29 - man/hatmatrix.Rd | 37 + man/invmat.Rd | 6 man/metabias.netmeta.Rd | 10 man/netbind.Rd | 36 - man/netcomb.Rd | 138 +++--- man/netcomparison.Rd | 47 +- man/netcomplex.Rd | 49 +- man/netconnection.Rd | 15 man/netcontrib.Rd | 19 man/netdistance.Rd | 2 man/netgraph.Rd | 20 man/netgraph.discomb.Rd | 4 man/netgraph.netcomb.Rd | 3 man/netgraph.netconnection.Rd | 31 + man/netgraph.netimpact.Rd | 9 man/netgraph.netmeta.Rd | 35 - man/netheat.Rd | 4 man/netimpact.Rd | 13 man/netleague.Rd | 101 ++-- man/netmatrix.Rd | 25 - man/netmeasures.Rd | 14 man/netmeta-package.Rd | 2 man/netmeta.Rd | 161 +++---- man/netmetabin.Rd | 66 +-- man/netpairwise.Rd | 17 man/netposet.Rd | 114 ++--- man/netrank.Rd | 33 - man/netsplit.Rd | 61 +- man/nettable.Rd |only man/pairwise.Rd | 83 ++- man/plot.netposet.Rd | 36 - man/plot.netrank.Rd | 75 +-- man/plot.rankogram.Rd | 10 man/print.decomp.design.Rd | 2 man/print.netbind.Rd | 17 man/print.netcomb.Rd | 18 man/print.netimpact.Rd | 23 - man/print.summary.netcomb.Rd | 14 man/print.summary.netmeta.Rd | 24 - man/rankogram.Rd | 20 man/smokingcessation.Rd | 8 man/subset.pairwise.Rd |only man/summary.netcomb.Rd | 14 man/summary.netmeta.Rd | 26 - man/treats.Rd | 4 159 files changed, 4737 insertions(+), 4271 deletions(-)
Title: Statistical Methods for Sensitivity Analysis in Meta-Analysis
Description: The following methods are implemented to evaluate how sensitive the results of a meta-analysis are to potential bias in meta-analysis and to support Schwarzer et al. (2015) <DOI:10.1007/978-3-319-21416-0>, Chapter 5 'Small-Study Effects in Meta-Analysis':
- Copas selection model described in Copas & Shi (2001) <DOI:10.1177/096228020101000402>;
- limit meta-analysis by Rücker et al. (2011) <DOI:10.1093/biostatistics/kxq046>;
- upper bound for outcome reporting bias by Copas & Jackson (2004) <DOI:10.1111/j.0006-341X.2004.00161.x>;
- imputation methods for missing binary data by Gamble & Hollis (2005) <DOI:10.1016/j.jclinepi.2004.09.013> and Higgins et al. (2008) <DOI:10.1177/1740774508091600>;
- LFK index test and Doi plot by Furuya-Kanamori et al. (2018) <DOI:10.1097/XEB.0000000000000141>.
Author: Guido Schwarzer [cre, aut] ,
James R. Carpenter [aut] ,
Gerta Ruecker [aut]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between metasens versions 1.0-1 dated 2022-01-28 and 1.5-0 dated 2022-07-11
DESCRIPTION | 12 ++-- MD5 | 35 +++++++------- NEWS.md | 9 +++ R/copas.R | 8 +-- R/forest.orbbound.R | 81 +++++++++++++++++++-------------- R/limitmeta.R | 4 - R/meta-aux.R | 2 R/meta-int.R |only R/metamiss.R | 25 +++++++--- R/orbbound.R | 12 ++-- R/plot.copas.R | 4 - R/print.orbbound.R | 108 +++++++++++++++++++++++--------------------- R/print.summary.limitmeta.R | 2 man/copas.Rd | 4 - man/forest.orbbound.Rd | 24 +++++---- man/metamiss.Rd | 13 ++++- man/orbbound.Rd | 4 - man/plot.copas.Rd | 2 man/print.orbbound.Rd | 19 ++++--- 19 files changed, 213 insertions(+), 155 deletions(-)
Title: Irregularly Observed Autoregressive Models
Description: Data sets, functions and scripts with examples to implement autoregressive models for irregularly observed time series. The models available in this package are the irregular autoregressive model (Eyheramendy et al.(2018) <doi:10.1093/mnras/sty2487>), the complex irregular autoregressive model (Elorrieta et al.(2019) <doi:10.1051/0004-6361/201935560>) and the bivariate irregular autoregressive model (Elorrieta et al.(2021) <doi:10.1093/mnras/stab1216>).
Author: Elorrieta Felipe [aut, cre],
Ojeda Cesar [aut],
Eyheramendy Susana [aut],
Palma Wilfredo [aut]
Maintainer: Elorrieta Felipe <felipe.elorrieta@usach.cl>
Diff between iAR versions 1.0.1 dated 2022-04-19 and 1.1.0 dated 2022-07-11
DESCRIPTION | 8 - MD5 | 40 +++++---- NAMESPACE | 3 R/BIARsmoothing.R | 223 +++++++++++++++++++++++++-------------------------- R/IARkalman.R | 78 ++++++++--------- R/IARsmoothing.R |only R/RcppExports.R | 8 + R/cvnovag.R |only R/cvnovar.R |only R/iAR.R | 58 ++++++------- R/pairingits.R |only build/partial.rdb |binary data/cvnovag.rda |only data/cvnovar.rda |only inst/REFERENCES.bib | 18 +++- man/BIARfit.Rd | 4 man/IARkalman.Rd | 2 man/IARphikalman.Rd | 2 man/IARphiloglik.Rd | 2 man/IARsmoothing.Rd |only man/cvnovag.Rd |only man/cvnovar.Rd |only man/pairingits.Rd |only src/BIARfit.cpp | 17 +++ src/IARphikalman.cpp | 4 src/IARphiloglik.cpp | 8 - 26 files changed, 261 insertions(+), 214 deletions(-)
Title: Generalized Fiducial Inference for Normal Linear Mixed Models
Description: Simulation of the generalized fiducial distribution for
normal linear mixed models with interval data. Fiducial inference is
somehow similar to Bayesian inference, in the sense that it is based
on a distribution that represents the uncertainty about the
parameters, like the posterior distribution in Bayesian statistics. It
does not require a prior distribution, and it yields results close to
frequentist results. Reference: Cisewski and Hannig (2012)
<doi:10.1214/12-AOS1030>.
Author: Stephane Laurent [aut, cre],
Jessi Cisewski [aut, ctb]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between gfilmm versions 2.0.4 dated 2021-06-25 and 2.0.5 dated 2022-07-11
DESCRIPTION | 45 - MD5 | 54 +- NAMESPACE | 61 +- NEWS.md | 97 +-- R/RcppExports.R | 22 R/datasets.R | 56 +- R/gfilmm.R | 257 ++++----- R/imports.R | 6 R/inference.R | 292 +++++------ R/internal.R | 197 ++++--- R/predictive.R | 170 +++--- README.md | 62 +- build/vignette.rds |binary inst/doc/the-gfilmm-package.R | 260 ++++----- inst/doc/the-gfilmm-package.Rmd | 674 ++++++++++++------------- inst/doc/the-gfilmm-package.html | 944 +++++++++++++++++------------------- man/KM41.Rd | 48 - man/gfiCDF.Rd | 64 +- man/gfiConfInt.Rd | 60 +- man/gfiQuantile.Rd | 62 +- man/gfiSummary.Rd | 58 +- man/gfilmm.Rd | 152 ++--- man/gfilmmPredictive.Rd | 78 +- man/pHdata.Rd | 48 - tests/testthat.R | 8 tests/testthat/test-getCovariates.R | 70 +- vignettes/the-gfilmm-package.Rmd | 674 ++++++++++++------------- vignettes/vignette.css | 140 ++--- 28 files changed, 2350 insertions(+), 2309 deletions(-)
Title: UK Epidemiological Data Management
Description: Contains utilities and functions for the cleaning, processing and
management of patient level public health data for surveillance
and analysis held by the UK Health Security Agency, UKHSA.
Author: Alex Bhattacharya [aut, cre]
Maintainer: Alex Bhattacharya <alex.bhatt@gmail.com>
Diff between epidm versions 1.0.3 dated 2022-07-06 and 1.0.4 dated 2022-07-11
DESCRIPTION | 16 - MD5 | 32 +-- NEWS.md | 8 R/sql_connect.R | 2 inst/sql/ecds.sql | 76 ++++---- inst/sql/sus.sql | 224 +++++++++++------------ man/genus_gram_stain.Rd | 52 ++--- man/inpatient_codes.Rd | 394 +++++++++++++++++++++--------------------- man/link_ae_inpatient.Rd | 112 +++++------ man/lookup_recode.Rd | 136 +++++++------- man/respeciate_generic.Rd | 124 ++++++------- man/respeciate_organism.Rd | 54 ++--- man/specimen_type_grouping.Rd | 48 ++--- man/sql_clean.Rd | 64 +++--- man/sql_connect.Rd | 78 ++++---- man/sql_read.Rd | 54 ++--- man/sql_write.Rd | 52 ++--- 17 files changed, 765 insertions(+), 761 deletions(-)
Title: Allan Variance
Description: Implements the allan variance and allan variance linear regression estimator for latent time series models. More details about the method can be found, for example, in Guerrier, S., Molinari, R., & Stebler, Y. (2016) <doi:10.1109/LSP.2016.2541867>.
Author: Stephane Guerrier [aut, cre],
James Balamuta [aut],
Gaetan Bakalli [aut],
Roberto Molinari [aut],
Justin Lee [aut],
Ahmed Radi [aut],
Haotian Xu [aut],
Yuming Zhang [aut],
Nathanael Claussen [aut],
Lionel Voirol [ctb]
Maintainer: Stephane Guerrier <stef.guerrier@gmail.com>
Diff between avar versions 0.1.1 dated 2020-01-15 and 0.1.2 dated 2022-07-11
DESCRIPTION | 16 +- MD5 | 38 ++-- NEWS.md | 4 R/avar.r | 152 ++++++++++++++----- R/avlr.R | 179 ++++++++++++++++------ R/data.R | 26 +-- README.md | 21 +- build/vignette.rds |binary data/ln200_av.rda |only inst/doc/avar-example.R | 12 - inst/doc/avar-example.html | 352 ++++++++++++--------------------------------- man/adis_av.Rd | 6 man/imar_av.Rd | 6 man/kvh1750_av.Rd | 6 man/ln200_av.Rd |only man/navchip_av.Rd | 6 man/plot.avar.Rd | 7 man/plot.avlr.Rd | 11 - man/plot.imu_avar.Rd | 6 man/plot.imu_avlr.Rd | 4 src/RcppExports.cpp | 5 21 files changed, 442 insertions(+), 415 deletions(-)
Title: Infer Geographic Origin from Isotopic Data
Description: Routines for re-scaling isotope maps using known-origin tissue isotope data, assigning origin of unknown samples, and summarizing and assessing assignment results. Methods are adapted from Wunder (2010, in ISBN:9789048133536) and Vander Zanden, H. B. et al. (2014) <doi:10.1111/2041-210X.12229> as described in Ma, C. et al. (2020) <doi:10.1111/2041-210X.13426>.
Author: Chao Ma, Gabe Bowen
Maintainer: Gabe Bowen <gabe.bowen@utah.edu>
Diff between assignR versions 2.2.0 dated 2022-02-24 and 2.2.1 dated 2022-07-11
DESCRIPTION | 7 MD5 | 18 - NEWS.md | 3 R/sysdata.rda |binary build/partial.rdb |binary data/knownOrig.rda |binary data/sr_MI.rda |binary inst/doc/assignR.Rmd | 4 inst/doc/assignR.html | 590 ++++++++++++++++++++++++++++++++++++++++++-------- vignettes/assignR.Rmd | 4 10 files changed, 518 insertions(+), 108 deletions(-)
Title: Regression Analysis Linear and Nonlinear for Agriculture
Description: Linear and nonlinear regression analysis common in agricultural science articles (Archontoulis & Miguez (2015). <doi:10.2134/agronj2012.0506>). The package includes polynomial, exponential, gaussian, logistic, logarithmic, segmented, non-parametric models, among others. The functions return the model coefficients and their respective p values, coefficient of determination, root mean square error, AIC, BIC, as well as graphs with the equations automatically.
Author: Gabriel Danilo Shimizu [aut, cre]
,
Leandro Simoes Azeredo Goncalves [aut, ctb]
Maintainer: Gabriel Danilo Shimizu <shimizu@uel.br>
Diff between AgroReg versions 1.2.5 dated 2022-06-06 and 1.2.6 dated 2022-07-11
DESCRIPTION | 8 +++---- MD5 | 46 +++++++++++++++++++++---------------------- R/IC_analysis.R | 2 - R/LM13_analysis.R | 4 +-- R/LM13i_analysis.R | 4 +-- R/LM23_analysis.R | 4 +-- R/LM23i_analysis.R | 4 +-- R/LM2i3_analysis.R | 4 +-- R/LM_analysis.R | 4 +-- R/LM_i_analysis.R | 4 +-- R/N_analysis.R | 2 - R/asymptotic_analysis.R | 2 - R/asymptotic_i_analysis.R | 2 - R/color_edition.R | 10 +++------ R/extractmodel_analysis.R | 6 ++--- R/gompertz_analysis.R | 2 - R/plot_arrange.R | 49 ++++++++++++++++++++++------------------------ R/stat_param.R | 4 +-- build/partial.rdb |binary man/GP.Rd | 2 - man/asymptotic.Rd | 2 - man/asymptotic_i.Rd | 2 - man/coloredit_arrange.Rd | 10 +++------ man/plot_arrange.Rd | 5 +--- 24 files changed, 88 insertions(+), 94 deletions(-)
Title: Areal Interpolation of Population Data
Description: Areal interpolation of population data obtained
by census surveys. Given a set of source zone polygons such as
census tracts or city blocks alongside with population counts and a
target zone of incogruent yet superimposed polygon features (such as
individual buildings) populR transforms population counts from the
former to the latter using Areal Weighting and Volume Weighting
Interpolation methods.
Author: Marios Batsaris
Maintainer: Marios Batsaris <m.batsaris@aegean.gr>
Diff between populR versions 0.1.4 dated 2022-01-18 and 0.1.5 dated 2022-07-11
populR-0.1.4/populR/R/source.R |only populR-0.1.4/populR/R/target.R |only populR-0.1.4/populR/data/source.rda |only populR-0.1.4/populR/data/target.rda |only populR-0.1.4/populR/man/source.Rd |only populR-0.1.4/populR/man/target.Rd |only populR-0.1.5/populR/DESCRIPTION | 14 +++-- populR-0.1.5/populR/MD5 | 51 +++++++++++++------ populR-0.1.5/populR/NAMESPACE | 2 populR-0.1.5/populR/R/pp_estimate.R | 87 +++++++++++++++++---------------- populR-0.1.5/populR/R/pp_rmse.R | 53 +++++++++++--------- populR-0.1.5/populR/R/pp_round.R | 71 ++++++++++++++------------ populR-0.1.5/populR/R/src.R |only populR-0.1.5/populR/R/trg.R |only populR-0.1.5/populR/R/utils.R | 27 ++++------ populR-0.1.5/populR/data/src.rda |only populR-0.1.5/populR/data/trg.rda |only populR-0.1.5/populR/inst |only populR-0.1.5/populR/man/pp_estimate.Rd | 25 ++++----- populR-0.1.5/populR/man/pp_rmse.Rd | 18 +++--- populR-0.1.5/populR/man/pp_round.Rd | 15 +++-- populR-0.1.5/populR/man/src.Rd |only populR-0.1.5/populR/man/trg.Rd |only populR-0.1.5/populR/tests |only 24 files changed, 200 insertions(+), 163 deletions(-)
Title: Bayesian Spatial Analysis
Description: For Bayesian inference with spatial data, provides exploratory spatial analysis tools, multiple spatial model specifications, spatial model diagnostics, and special methods for inference with small area survey data (e.g., the America Community Survey (ACS)) and censored population health surveillance data. Models are pre-specified using the Stan programming language, a platform for Bayesian inference using Markov chain Monte Carlo (MCMC). References: Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>; Donegan (2021) <doi:10.31219/osf.io/3ey65>; Donegan, Chun and Hughes (2020) <doi:10.1016/j.spasta.2020.100450>; Donegan, Chun and Griffith (2021) <doi:10.3390/ijerph18136856>; Morris et al. (2019) <doi:10.1016/j.sste.2019.100301>.
Author: Connor Donegan [aut, cre] ,
Mitzi Morris [ctb]
Maintainer: Connor Donegan <connor.donegan@gmail.com>
Diff between geostan versions 0.2.1 dated 2022-02-09 and 0.3.0 dated 2022-07-11
geostan-0.2.1/geostan/vignettes/bib.bib |only geostan-0.3.0/geostan/DESCRIPTION | 20 geostan-0.3.0/geostan/MD5 | 86 - geostan-0.3.0/geostan/NAMESPACE | 2 geostan-0.3.0/geostan/NEWS.md |only geostan-0.3.0/geostan/R/convenience-functions.R | 244 ---- geostan-0.3.0/geostan/R/geary.R |only geostan-0.3.0/geostan/R/geostan-package.R | 2 geostan-0.3.0/geostan/R/moran.R |only geostan-0.3.0/geostan/R/stan_car.R | 22 geostan-0.3.0/geostan/R/stan_esf.R | 13 geostan-0.3.0/geostan/R/stan_glm.R | 11 geostan-0.3.0/geostan/R/stan_icar.R | 11 geostan-0.3.0/geostan/README.md | 28 geostan-0.3.0/geostan/build/partial.rdb |binary geostan-0.3.0/geostan/build/vignette.rds |binary geostan-0.3.0/geostan/inst/CITATION | 12 geostan-0.3.0/geostan/inst/doc/measuring-sa.R | 47 geostan-0.3.0/geostan/inst/doc/measuring-sa.Rmd | 161 ++- geostan-0.3.0/geostan/inst/doc/measuring-sa.html | 279 +++-- geostan-0.3.0/geostan/inst/doc/spatial-me-models.R | 122 -- geostan-0.3.0/geostan/inst/doc/spatial-me-models.Rmd | 335 ++---- geostan-0.3.0/geostan/inst/doc/spatial-me-models.html | 530 +++------- geostan-0.3.0/geostan/inst/stan/parts/model.stan | 13 geostan-0.3.0/geostan/man/aple.Rd | 4 geostan-0.3.0/geostan/man/expected_mc.Rd | 4 geostan-0.3.0/geostan/man/figures/README-unnamed-chunk-5-1.png |binary geostan-0.3.0/geostan/man/geostan-package.Rd | 2 geostan-0.3.0/geostan/man/gr.Rd |only geostan-0.3.0/geostan/man/lg.Rd |only geostan-0.3.0/geostan/man/lisa.Rd | 16 geostan-0.3.0/geostan/man/mc.Rd | 12 geostan-0.3.0/geostan/man/me_diag.Rd | 2 geostan-0.3.0/geostan/man/moran_plot.Rd | 2 geostan-0.3.0/geostan/man/prep_me_data.Rd | 2 geostan-0.3.0/geostan/man/shape2mat.Rd | 6 geostan-0.3.0/geostan/man/stan_car.Rd | 6 geostan-0.3.0/geostan/man/stan_esf.Rd | 5 geostan-0.3.0/geostan/man/stan_glm.Rd | 3 geostan-0.3.0/geostan/man/stan_icar.Rd | 3 geostan-0.3.0/geostan/man/waic.Rd | 2 geostan-0.3.0/geostan/src/stanExports_foundation.h | 152 +- geostan-0.3.0/geostan/tests/testthat/test-rstan-conformity.R | 38 geostan-0.3.0/geostan/tests/testthat/test-sa-fns.R | 41 geostan-0.3.0/geostan/vignettes/ESDA.bib |only geostan-0.3.0/geostan/vignettes/measuring-sa.Rmd | 161 ++- geostan-0.3.0/geostan/vignettes/spatial-me-models.Rmd | 335 ++---- geostan-0.3.0/geostan/vignettes/spatial-me.bib |only 48 files changed, 1274 insertions(+), 1460 deletions(-)
Title: Radiocarbon Calibration Curves
Description: The IntCal20 radiocarbon calibration curves (Reimer et al. 2020 <doi:10.1017/RDC.2020.68>) are provided here in a single data package, together with previous IntCal curves (IntCal13, IntCal09, IntCal04, IntCal98) and postbomb curves. Also provided are functions to copy the curves into memory, and to plot the curves and their underlying data, as well as functions to calibrate radiocarbon dates.
Author: Maarten Blaauw [aut, cre]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between IntCal versions 0.3.0 dated 2021-11-26 and 0.3.1 dated 2022-07-11
DESCRIPTION | 8 - MD5 | 37 ++++----- NAMESPACE | 1 NEWS.md | 5 + R/IntCal.R | 134 +++++++++++++++++++-------------- R/calibrate.R | 10 +- R/plots.R | 28 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/calculations.html | 3 inst/doc/intro.html | 5 - inst/doc/plots.html | 3 inst/extdata/intcal20_data_sources.txt | 12 +- man/calBP.14C.Rd | 4 man/caldist.Rd | 5 - man/calibrate.Rd | 3 man/ccurve.Rd | 4 man/draw.ccurve.Rd | 3 man/draw.dates.Rd | 3 man/new.ccdir.Rd |only 20 files changed, 161 insertions(+), 107 deletions(-)
Title: Various R Programming Tools
Description: Functions to assist in R programming, including:
- assist in developing, updating, and maintaining R and R packages ('ask', 'checkRVersion',
'getDependencies', 'keywords', 'scat'),
- calculate the logit and inverse logit transformations ('logit', 'inv.logit'),
- test if a value is missing, empty or contains only NA and NULL values ('invalid'),
- manipulate R's .Last function ('addLast'),
- define macros ('defmacro'),
- detect odd and even integers ('odd', 'even'),
- convert strings containing non-ASCII characters (like single quotes) to plain ASCII ('ASCIIfy'),
- perform a binary search ('binsearch'),
- sort strings containing both numeric and character components ('mixedsort'),
- create a factor variable from the quantiles of a continuous variable ('quantcut'),
- enumerate permutations and combinations ('combinations', 'permutation'),
- calculate and convert between fold-change and log-ratio ('foldchange',
'logratio2foldchange', 'foldchange2logratio'),
- calculate probabilities and generate random numbers from Dirichlet distributions
('rdirichlet', 'ddirichlet'),
- apply a function over adjacent subsets of a vector ('running'),
- modify the TCP\_NODELAY ('de-Nagle') flag for socket objects,
- efficient 'rbind' of data frames, even if the column names don't match ('smartbind'),
- generate significance stars from p-values ('stars.pval'),
- convert characters to/from ASCII codes ('asc', 'chr'),
- convert character vector to ASCII representation ('ASCIIfy'),
- apply title capitalization rules to a character vector ('capwords').
Author: Ben Bolker [aut, cre] ,
Gregory R. Warnes [aut],
Thomas Lumley [aut]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Diff between gtools versions 3.9.2.2 dated 2022-06-13 and 3.9.3 dated 2022-07-11
DESCRIPTION | 23 +++++++++++++++-------- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 6 ++++++ R/checkRVersion.R | 20 +++++--------------- R/defmacro.R | 11 ----------- R/getDependencies.R | 9 +++++---- R/gtools-package.R | 2 +- R/keywords.R | 2 ++ R/unByteCode.R | 23 +++++++++++++++++------ data/ELISA.rda |binary data/badDend.rda |binary inst/NEWS.md | 6 ++++++ man/checkRVersion.Rd | 2 +- man/getDependencies.Rd | 9 +++++---- man/gtools.Rd | 2 +- man/keywords.Rd | 2 ++ man/unByteCode.Rd | 10 ++++++++-- tests/test_setTCPNoDelay.R | 3 +-- 18 files changed, 92 insertions(+), 72 deletions(-)
Title: Annotate Statistical Tests for 'ggplot2'
Description: Automatically performs desired statistical tests (e.g. wilcox.test(), t.test()) to compare between groups,
and adds the resulting p-values to the plot with an annotation bar.
Visualizing group differences are frequently performed by boxplots, bar plots, etc.
Statistical test results are often needed to be annotated on these plots.
This package provides a convenient function that works on 'ggplot2' objects,
performs the desired statistical test between groups of interest and annotates the test results on the plot.
Author: Jun Cheng [aut, cre]
Maintainer: Jun Cheng <s6juncheng@gmail.com>
Diff between ggpval versions 0.2.4 dated 2020-11-22 and 0.2.5 dated 2022-07-11
DESCRIPTION | 7 +++---- MD5 | 31 ++++++++++++++++--------------- NEWS.md | 5 ++--- R/add_pval_ggplot.R | 26 +++++++++++++++++++------- build/vignette.rds |binary inst/doc/ggpval.R | 2 +- inst/doc/ggpval.Rmd | 2 +- inst/doc/ggpval.html | 14 +++++++------- man/figures/plotly.png |only man/figures/unnamed-chunk-3-1.png |binary man/figures/unnamed-chunk-4-1.png |binary man/figures/unnamed-chunk-5-1.png |binary man/figures/unnamed-chunk-6-1.png |binary man/figures/unnamed-chunk-7-1.png |binary man/figures/unnamed-chunk-8-1.png |binary tests/testthat/test-add_pval.R | 1 - vignettes/ggpval.Rmd | 2 +- 17 files changed, 50 insertions(+), 40 deletions(-)
Title: 'WhiteboxTools' R Frontend
Description: An R frontend for the 'WhiteboxTools' library, which is an advanced geospatial data analysis platform developed by Prof. John Lindsay at the University of Guelph's Geomorphometry and Hydrogeomatics Research Group. 'WhiteboxTools' can be used to perform common geographical information systems (GIS) analysis operations, such as cost-distance analysis, distance buffering, and raster reclassification. Remote sensing and image processing tasks include image enhancement (e.g. panchromatic sharpening, contrast adjustments), image mosaicing, numerous filtering operations, simple classification (k-means), and common image transformations. 'WhiteboxTools' also contains advanced tooling for spatial hydrological analysis (e.g. flow-accumulation, watershed delineation, stream network analysis, sink removal), terrain analysis (e.g. common terrain indices such as slope, curvatures, wetness index, hillshading; hypsometric analysis; multi-scale topographic position analysis), and LiDAR data processing. Suggested citation: Lindsay (2016) <doi:10.1016/j.cageo.2016.07.003>.
Author: Qiusheng Wu [aut],
Andrew Brown [ctb, cre]
Maintainer: Andrew Brown <brown.andrewg@gmail.com>
Diff between whitebox versions 2.1.4 dated 2022-05-15 and 2.1.5 dated 2022-07-11
DESCRIPTION | 8 MD5 | 32 NAMESPACE | 3 NEWS.md | 6 R/wbt.R | 64 + README.md | 28 build/partial.rdb |only inst/doc/datasets.Rmd | 9 inst/doc/datasets.html | 14 inst/doc/demo.Rmd | 8 inst/doc/demo.html | 1039 ++++++++++++++++--------------- man/figures/README-unnamed-chunk-8-1.png |binary man/install_whitebox.Rd | 11 man/wbt_activate.Rd |only man/whitebox-package.Rd | 2 tests/testthat/test-wbt.R | 136 ++-- vignettes/datasets.Rmd | 9 vignettes/demo.Rmd | 8 18 files changed, 760 insertions(+), 617 deletions(-)
Title: Rendering Parameterized SQL and Translation to Dialects
Description: A rendering tool for parameterized SQL that also translates into
different SQL dialects. These dialects include 'Microsoft Sql Server', 'Oracle',
'PostgreSql', 'Amazon RedShift', 'Apache Impala', 'IBM Netezza', 'Google BigQuery', 'Microsoft PDW', 'Apache Spark', and 'SQLite'.
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between SqlRender versions 1.9.1 dated 2022-06-29 and 1.9.2 dated 2022-07-11
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS.md | 12 ++++++++++++ R/HelperFunctions.R | 2 +- README.md | 37 ++++++++++++++++++------------------- inst/doc/UsingSqlRender.pdf |binary inst/shinyApps/SqlDeveloper/ui.R | 4 ++-- 7 files changed, 45 insertions(+), 34 deletions(-)
Title: Calculate Pairwise Multiple Comparisons of Mean Rank Sums
Extended
Description: For one-way layout experiments the one-way ANOVA can
be performed as an omnibus test. All-pairs multiple comparisons
tests (Tukey-Kramer test, Scheffe test, LSD-test)
and many-to-one tests (Dunnett test) for normally distributed
residuals and equal within variance are available. Furthermore,
all-pairs tests (Games-Howell test, Tamhane's T2 test,
Dunnett T3 test, Ury-Wiggins-Hochberg test) and many-to-one
(Tamhane-Dunnett Test) for normally distributed residuals
and heterogeneous variances are provided. Van der Waerden's normal
scores test for omnibus, all-pairs and many-to-one tests is
provided for non-normally distributed residuals and homogeneous
variances. The Kruskal-Wallis, BWS and Anderson-Darling
omnibus test and all-pairs tests
(Nemenyi test, Dunn test, Conover test, Dwass-Steele-Critchlow-
Fligner test) as well as many-to-one (Nemenyi test, Dunn test,
U-test) are given for the analysis of variance by ranks.
Non-parametric trend tests (Jonckheere test, Cuzick test,
Johnson-Mehrotra test, Spearman test) are included.
In addition, a Friedman-test for one-way ANOVA with repeated
measures on ranks (CRBD) and Skillings-Mack test for unbalanced
CRBD is provided with consequent all-pairs tests (Nemenyi test,
Siegel test, Miller test, Conover test, Exact test)
and many-to-one tests (Nemenyi test, Demsar test, Exact test).
A trend can be tested with Pages's test. Durbin's test
for a two-way balanced incomplete block design (BIBD) is given
in this package as well as Gore's test for CRBD with multiple
observations per cell is given. Outlier tests, Mandel's k- and
h statistic as well as functions for Type I error and Power
analysis as well as generic summary, print and plot methods
are provided.
Author: Thorsten Pohlert [aut, cre]
Maintainer: Thorsten Pohlert <thorsten.pohlert@gmx.de>
Diff between PMCMRplus versions 1.9.4 dated 2022-04-07 and 1.9.5 dated 2022-07-11
PMCMRplus-1.9.4/PMCMRplus/src/PMCMR.h |only PMCMRplus-1.9.5/PMCMRplus/DESCRIPTION | 12 PMCMRplus-1.9.5/PMCMRplus/MD5 | 237 +++++----- PMCMRplus-1.9.5/PMCMRplus/NAMESPACE | 13 PMCMRplus-1.9.5/PMCMRplus/R/Cochran.R | 2 PMCMRplus-1.9.5/PMCMRplus/R/Dgrubbs.R | 4 PMCMRplus-1.9.5/PMCMRplus/R/Dunnett.R |only PMCMRplus-1.9.5/PMCMRplus/R/Grubbs.R | 3 PMCMRplus-1.9.5/PMCMRplus/R/chenTest.R |only PMCMRplus-1.9.5/PMCMRplus/R/dunnettTest.R | 47 -- PMCMRplus-1.9.5/PMCMRplus/R/frdHouseTest.R |only PMCMRplus-1.9.5/PMCMRplus/R/mandelh.R | 4 PMCMRplus-1.9.5/PMCMRplus/R/power.dunnett.test.R |only PMCMRplus-1.9.5/PMCMRplus/R/power.tukey.test.R |only PMCMRplus-1.9.5/PMCMRplus/R/power.williams.test.R |only PMCMRplus-1.9.5/PMCMRplus/R/powerMCTests.R | 4 PMCMRplus-1.9.5/PMCMRplus/R/qmandelk.R | 4 PMCMRplus-1.9.5/PMCMRplus/R/shirleyWilliamsTest.R | 6 PMCMRplus-1.9.5/PMCMRplus/R/sysdata.rda |binary PMCMRplus-1.9.5/PMCMRplus/R/williamsTest.R | 2 PMCMRplus-1.9.5/PMCMRplus/build/partial.rdb |binary PMCMRplus-1.9.5/PMCMRplus/build/vignette.rds |binary PMCMRplus-1.9.5/PMCMRplus/data/Pentosan.rda |binary PMCMRplus-1.9.5/PMCMRplus/data/algae.rda |binary PMCMRplus-1.9.5/PMCMRplus/data/qPCR.rda |binary PMCMRplus-1.9.5/PMCMRplus/data/reviewers.rda |binary PMCMRplus-1.9.5/PMCMRplus/data/trout.rda |binary PMCMRplus-1.9.5/PMCMRplus/inst/NEWS.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/inst/doc/QuickReferenceGuide.html | 281 ++++++++++-- PMCMRplus-1.9.5/PMCMRplus/man/Cochran.Rd | 4 PMCMRplus-1.9.5/PMCMRplus/man/Dgrubbs.Rd | 4 PMCMRplus-1.9.5/PMCMRplus/man/Dunnett.Rd |only PMCMRplus-1.9.5/PMCMRplus/man/GSTTest.Rd | 36 - PMCMRplus-1.9.5/PMCMRplus/man/Grubbs.Rd | 5 PMCMRplus-1.9.5/PMCMRplus/man/MTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/Mandel-h.Rd | 6 PMCMRplus-1.9.5/PMCMRplus/man/Mandel-k.Rd | 6 PMCMRplus-1.9.5/PMCMRplus/man/NPMTest.Rd | 42 - PMCMRplus-1.9.5/PMCMRplus/man/Pentosan.Rd | 6 PMCMRplus-1.9.5/PMCMRplus/man/adAllPairsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/adKSampleTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/adManyOneTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/algae.Rd | 38 - PMCMRplus-1.9.5/PMCMRplus/man/bwsAllPairsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/bwsKSampleTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/bwsManyOneTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/bwsTrendTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/chaAllPairsNashimotoTest.Rd | 26 - PMCMRplus-1.9.5/PMCMRplus/man/chackoTest.Rd | 20 PMCMRplus-1.9.5/PMCMRplus/man/chenTest.Rd |only PMCMRplus-1.9.5/PMCMRplus/man/cochranTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/cuzickTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/doubleGrubbsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/dscfAllPairsTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/duncanTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/dunnettT3Test.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/dunnettTest.Rd | 30 - PMCMRplus-1.9.5/PMCMRplus/man/durbinAllPairsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/durbinTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/flignerWolfeTest.Rd | 22 PMCMRplus-1.9.5/PMCMRplus/man/frdAllPairsConoverTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/frdAllPairsExactTest.Rd | 18 PMCMRplus-1.9.5/PMCMRplus/man/frdAllPairsMillerTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/frdAllPairsNemenyiTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/frdAllPairsSiegelTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/frdHouseTest.Rd |only PMCMRplus-1.9.5/PMCMRplus/man/frdManyOneDemsarTest.Rd | 29 - PMCMRplus-1.9.5/PMCMRplus/man/frdManyOneExactTest.Rd | 31 - PMCMRplus-1.9.5/PMCMRplus/man/frdManyOneNemenyiTest.Rd | 35 - PMCMRplus-1.9.5/PMCMRplus/man/friedmanTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/gamesHowellTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/goreTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/grubbsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/hartleyTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/hayterStoneTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/hsAllPairsTest.Rd | 26 - PMCMRplus-1.9.5/PMCMRplus/man/johnsonTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/jonckheereTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/kruskalTest.Rd | 34 - PMCMRplus-1.9.5/PMCMRplus/man/kwAllPairsConoverTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/kwAllPairsDunnTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/kwAllPairsNemenyiTest.Rd | 26 - PMCMRplus-1.9.5/PMCMRplus/man/kwManyOneConoverTest.Rd | 19 PMCMRplus-1.9.5/PMCMRplus/man/kwManyOneDunnTest.Rd | 19 PMCMRplus-1.9.5/PMCMRplus/man/kwManyOneNdwTest.Rd | 17 PMCMRplus-1.9.5/PMCMRplus/man/leTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/lsdTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/mackWolfeTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/mandelhTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/mandelkTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/manyOneUTest.Rd | 17 PMCMRplus-1.9.5/PMCMRplus/man/mrrTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/normalScoresAllPairsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/normalScoresManyOneTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/normalScoresTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/osrtTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/pageTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/power.dunnett.test.Rd |only PMCMRplus-1.9.5/PMCMRplus/man/power.tukey.test.Rd |only PMCMRplus-1.9.5/PMCMRplus/man/power.williams.test.Rd |only PMCMRplus-1.9.5/PMCMRplus/man/powerMCTests.Rd | 13 PMCMRplus-1.9.5/PMCMRplus/man/powerOneWayTests.Rd | 10 PMCMRplus-1.9.5/PMCMRplus/man/qPCR.Rd | 52 +- PMCMRplus-1.9.5/PMCMRplus/man/quadeAllPairsTest.Rd | 10 PMCMRplus-1.9.5/PMCMRplus/man/reviewers.Rd | 4 PMCMRplus-1.9.5/PMCMRplus/man/scheffeTest.Rd | 20 PMCMRplus-1.9.5/PMCMRplus/man/shanTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/shirleyWilliamsTest.Rd | 30 - PMCMRplus-1.9.5/PMCMRplus/man/siegelTukeyTest.Rd | 46 - PMCMRplus-1.9.5/PMCMRplus/man/skillingsMackTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/snkTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/spearmanTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/steelTest.Rd | 20 PMCMRplus-1.9.5/PMCMRplus/man/steelsKSampleTest.Rd | 14 PMCMRplus-1.9.5/PMCMRplus/man/stepDownTrendTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/tamhaneDunnettTest.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/tamhaneT2Test.Rd | 16 PMCMRplus-1.9.5/PMCMRplus/man/trout.Rd | 22 PMCMRplus-1.9.5/PMCMRplus/man/tukeyTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/uryWigginsHochbergTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/vanWaerdenAllPairsTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/vanWaerdenManyOneTest.Rd | 12 PMCMRplus-1.9.5/PMCMRplus/man/vanWaerdenTest.Rd | 2 PMCMRplus-1.9.5/PMCMRplus/man/welchManyOneTTest.Rd | 20 PMCMRplus-1.9.5/PMCMRplus/man/williamsTest.Rd | 28 - PMCMRplus-1.9.5/PMCMRplus/src/init.c | 52 -- 126 files changed, 1226 insertions(+), 970 deletions(-)
Title: An Implementation of Ordinal Pattern Analysis
Description: Quantifies hypothesis to data fit for repeated measures
and longitudinal data, as described by Thorngate (1987)
<doi:10.1016/S0166-4115(08)60083-7> and Grice et al., (2015)
<doi:10.1177/2158244015604192>. Hypothesis and data are encoded as
pairwise relative orderings which are then compared to determine the
percentage of orderings in the data that are matched by the hypothesis.
Author: Timothy Beechey [aut, cre]
Maintainer: Timothy Beechey <tim.beechey@protonmail.com>
Diff between opa versions 0.4.1 dated 2022-06-17 and 0.4.3 dated 2022-07-11
DESCRIPTION | 6 - MD5 | 12 +-- R/condition_comparison.R | 26 +++----- README.md | 110 +++++++++++++++++----------------- man/figures/README-plot_opamod1-1.png |binary man/figures/README-plot_opamod2-1.png |binary src/cpp_functions.cpp | 14 ++-- 7 files changed, 84 insertions(+), 84 deletions(-)
Title: Inference of Linear Mixed Models Through MM Algorithm
Description: The main function MMEst() performs (Restricted) Maximum Likelihood in a variance component mixed models using a Min-Max (MM) algorithm (Laporte, F., Charcosset, A. & Mary-Huard, T. (2022) <doi:10.1371/journal.pcbi.1009659>).
Author: Fabien Laporte, Tristan Mary-Huard, GQMS CoreFunctions Team
Maintainer: Fabien Laporte <fabien.laporte@outlook.com>
Diff between MM4LMM versions 2.1.0 dated 2021-09-27 and 3.0.2 dated 2022-07-11
DESCRIPTION | 15 +++--- MD5 | 33 +++++++------- NAMESPACE | 3 + R/Global.R |only R/MM4LMM-internal.R | 79 +++++++++++++++++++++++++++------- R/MMBlup.R |only R/MMEst.R | 17 ++++--- R/RcppExports.R | 8 +-- data/QTLDetectionExample.rda |binary data/VarianceComponentExample.rda |binary man/MM4LMM-package.Rd | 2 man/MMBlup.Rd |only man/MMEst.Rd | 9 +++ man/QTLDetectionExample.Rd | 88 +++++++++++++++++++------------------- man/VarianceComponentExample.Rd | 2 src/All.cpp | 8 +-- src/MLMM2Mat.h | 6 +- src/RcppExports.cpp | 18 ++++--- src/RemlMM2Mat.h | 8 +-- 19 files changed, 182 insertions(+), 114 deletions(-)
Title: Bootstrap Unit Root Tests
Description: Set of functions to perform various bootstrap unit root tests for both individual time series
(including augmented Dickey-Fuller test and union tests), multiple time series and panel data; see
Palm, Smeekes and Urbain (2008) <doi:10.1111/j.1467-9892.2007.00565.x>,
Palm, Smeekes and Urbain (2011) <doi:10.1016/j.jeconom.2010.11.010>,
Moon and Perron (2012) <doi:10.1016/j.jeconom.2012.01.008>,
Smeekes and Taylor (2012) <doi:10.1017/S0266466611000387> and
Smeekes (2015) <doi:10.1111/jtsa.12110> for key references.
Author: Stephan Smeekes [cre, aut] ,
Ines Wilms [aut]
Maintainer: Stephan Smeekes <s.smeekes@maastrichtuniversity.nl>
Diff between bootUR versions 0.4.2 dated 2021-11-25 and 0.5.0 dated 2022-07-11
bootUR-0.4.2/bootUR/R/auxiliary-deprecated.R |only bootUR-0.4.2/bootUR/R/bootUR-deprecated.R |only bootUR-0.4.2/bootUR/R/bootURtests-deprecated.R |only bootUR-0.4.2/bootUR/man/BSQTtest-deprecated.Rd |only bootUR-0.4.2/bootUR/man/bFDRtest-deprecated.Rd |only bootUR-0.4.2/bootUR/man/bootUR-deprecated.Rd |only bootUR-0.4.2/bootUR/man/boot_df-deprecated.Rd |only bootUR-0.4.2/bootUR/man/check_inputs_old-deprecated.Rd |only bootUR-0.4.2/bootUR/man/do_tests_and_bootstrap_old-deprecated.Rd |only bootUR-0.4.2/bootUR/man/iADFtest-deprecated.Rd |only bootUR-0.4.2/bootUR/man/paneltest-deprecated.Rd |only bootUR-0.5.0/bootUR/DESCRIPTION | 8 bootUR-0.5.0/bootUR/MD5 | 58 bootUR-0.5.0/bootUR/NAMESPACE | 6 bootUR-0.5.0/bootUR/NEWS.md | 10 bootUR-0.5.0/bootUR/R/RcppExports.R | 4 bootUR-0.5.0/bootUR/R/adftest.R | 28 bootUR-0.5.0/bootUR/R/auxiliary.R | 113 + bootUR-0.5.0/bootUR/R/bootURtests.R | 271 +++- bootUR-0.5.0/bootUR/R/order_of_integration.R | 15 bootUR-0.5.0/bootUR/build/vignette.rds |binary bootUR-0.5.0/bootUR/inst/doc/bootUR-intro.R | 1 bootUR-0.5.0/bootUR/inst/doc/bootUR-intro.Rmd | 1 bootUR-0.5.0/bootUR/inst/doc/bootUR-intro.html | 649 ++++++++-- bootUR-0.5.0/bootUR/man/adf.Rd | 1 bootUR-0.5.0/bootUR/man/boot_adf.Rd | 1 bootUR-0.5.0/bootUR/man/boot_fdr.Rd | 2 bootUR-0.5.0/bootUR/man/boot_panel.Rd | 1 bootUR-0.5.0/bootUR/man/boot_sqt.Rd | 2 bootUR-0.5.0/bootUR/man/boot_union.Rd | 1 bootUR-0.5.0/bootUR/man/boot_ur.Rd | 2 bootUR-0.5.0/bootUR/man/plot_missing_values.Rd | 2 bootUR-0.5.0/bootUR/man/print.bootUR.Rd |only bootUR-0.5.0/bootUR/src/RcppExports.cpp | 12 bootUR-0.5.0/bootUR/src/bootURfunctions.cpp | 87 - bootUR-0.5.0/bootUR/vignettes/bootUR-intro.Rmd | 1 36 files changed, 980 insertions(+), 296 deletions(-)
Title: Convert Data among QTL Mapping Packages
Description: Functions to convert data structures among the 'qtl2', 'qtl', and 'DOQTL' packages for mapping quantitative trait loci (QTL).
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl2convert versions 0.26 dated 2021-10-07 and 0.28 dated 2022-07-11
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NEWS.md | 7 ++++++- 3 files changed, 12 insertions(+), 7 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- common effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression;
- generalised linear mixed models;
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 5.2-0 dated 2022-02-04 and 5.5-0 dated 2022-07-11
meta-5.2-0/meta/R/lm2or.R |only meta-5.5-0/meta/DESCRIPTION | 12 meta-5.5-0/meta/MD5 | 175 - meta-5.5-0/meta/NAMESPACE | 2 meta-5.5-0/meta/NEWS.md | 92 + meta-5.5-0/meta/R/amlodipine.R | 16 meta-5.5-0/meta/R/as.data.frame.meta.R | 7 meta-5.5-0/meta/R/baujat.R | 66 meta-5.5-0/meta/R/bubble.R | 43 meta-5.5-0/meta/R/catmeth.R | 12 meta-5.5-0/meta/R/cisapride.R | 23 meta-5.5-0/meta/R/drapery.R | 126 - meta-5.5-0/meta/R/forest-internal.R | 34 meta-5.5-0/meta/R/forest.R | 2748 ++++++++++++++++++------------ meta-5.5-0/meta/R/forest.metabind.R | 35 meta-5.5-0/meta/R/funnel.R | 98 - meta-5.5-0/meta/R/hetcalc.R | 58 meta-5.5-0/meta/R/labbe.R | 258 +- meta-5.5-0/meta/R/meta-aux.R | 2 meta-5.5-0/meta/R/meta-ci.R | 43 meta-5.5-0/meta/R/meta-het.R | 10 meta-5.5-0/meta/R/meta-internal.R | 68 meta-5.5-0/meta/R/meta-is.R | 8 meta-5.5-0/meta/R/meta-package.R | 24 meta-5.5-0/meta/R/meta-xlab.R | 16 meta-5.5-0/meta/R/metabias.R | 14 meta-5.5-0/meta/R/metabin.R | 660 ++++--- meta-5.5-0/meta/R/metabind.R | 207 +- meta-5.5-0/meta/R/metacont.R | 259 +- meta-5.5-0/meta/R/metacor.R | 233 +- meta-5.5-0/meta/R/metacr.R | 127 - meta-5.5-0/meta/R/metacum.R | 90 meta-5.5-0/meta/R/metagen.R | 421 ++-- meta-5.5-0/meta/R/metainc.R | 474 +++-- meta-5.5-0/meta/R/metainf.R | 90 meta-5.5-0/meta/R/metamean.R | 239 +- meta-5.5-0/meta/R/metamerge.R | 169 - meta-5.5-0/meta/R/metaprop.R | 402 ++-- meta-5.5-0/meta/R/metarate.R | 454 +++- meta-5.5-0/meta/R/metareg.R | 133 - meta-5.5-0/meta/R/nnt.R | 79 meta-5.5-0/meta/R/or2smd.R | 8 meta-5.5-0/meta/R/print.meta.R | 235 +- meta-5.5-0/meta/R/print.summary.meta.R | 114 - meta-5.5-0/meta/R/radial.R | 74 meta-5.5-0/meta/R/read.rm5-internal.R | 14 meta-5.5-0/meta/R/read.rm5.R | 2 meta-5.5-0/meta/R/settings.meta.R | 101 - meta-5.5-0/meta/R/smd2or.R | 10 meta-5.5-0/meta/R/subgroup.R | 203 +- meta-5.5-0/meta/R/subset.longarm.R |only meta-5.5-0/meta/R/summary.meta.R | 48 meta-5.5-0/meta/R/trimfill.R | 134 - meta-5.5-0/meta/R/update.meta.R | 378 ++-- meta-5.5-0/meta/R/weights.meta.R | 51 meta-5.5-0/meta/man/amlodipine.Rd | 16 meta-5.5-0/meta/man/baujat.meta.Rd | 2 meta-5.5-0/meta/man/bubble.metareg.Rd | 12 meta-5.5-0/meta/man/cisapride.Rd | 23 meta-5.5-0/meta/man/drapery.Rd | 42 meta-5.5-0/meta/man/forest.meta.Rd | 262 +- meta-5.5-0/meta/man/forest.metabind.Rd | 6 meta-5.5-0/meta/man/funnel.meta.Rd | 44 meta-5.5-0/meta/man/labbe.Rd | 83 meta-5.5-0/meta/man/meta-package.Rd | 19 meta-5.5-0/meta/man/metabin.Rd | 252 +- meta-5.5-0/meta/man/metabind.Rd | 4 meta-5.5-0/meta/man/metacont.Rd | 125 - meta-5.5-0/meta/man/metacor.Rd | 128 - meta-5.5-0/meta/man/metacr.Rd | 20 meta-5.5-0/meta/man/metacum.Rd | 18 meta-5.5-0/meta/man/metagen.Rd | 127 - meta-5.5-0/meta/man/metainc.Rd | 170 + meta-5.5-0/meta/man/metainf.Rd | 18 meta-5.5-0/meta/man/metamean.Rd | 126 - meta-5.5-0/meta/man/metamerge.Rd | 32 meta-5.5-0/meta/man/metaprop.Rd | 163 + meta-5.5-0/meta/man/metarate.Rd | 164 + meta-5.5-0/meta/man/metareg.Rd | 4 meta-5.5-0/meta/man/nnt.Rd | 13 meta-5.5-0/meta/man/print.meta.Rd | 18 meta-5.5-0/meta/man/print.summary.meta.Rd | 4 meta-5.5-0/meta/man/radial.Rd | 19 meta-5.5-0/meta/man/read.rm5.Rd | 2 meta-5.5-0/meta/man/settings.meta.Rd | 8 meta-5.5-0/meta/man/subset.longarm.Rd |only meta-5.5-0/meta/man/summary.meta.Rd | 4 meta-5.5-0/meta/man/trimfill.Rd | 58 meta-5.5-0/meta/man/update.meta.Rd | 54 meta-5.5-0/meta/man/weights.meta.Rd | 26 90 files changed, 6947 insertions(+), 4518 deletions(-)
Title: The MBESS R Package
Description: Implements methods that are useful in designing research studies and analyzing data, with
particular emphasis on methods that are developed for or used within the behavioral,
educational, and social sciences (broadly defined). That being said, many of the methods
implemented within MBESS are applicable to a wide variety of disciplines. MBESS has a
suite of functions for a variety of related topics, such as effect sizes, confidence intervals
for effect sizes (including standardized effect sizes and noncentral effect sizes), sample size
planning (from the accuracy in parameter estimation [AIPE], power analytic, equivalence, and
minimum-risk point estimation perspectives), mediation analysis, various properties of
distributions, and a variety of utility functions. MBESS (pronounced 'em-bes') was originally
an acronym for 'Methods for the Behavioral, Educational, and Social Sciences,' but MBESS became
more general and now contains methods applicable and used in a wide variety of fields and is an
orphan acronym, in the sense that what was an acronym is now literally its name. MBESS has
greatly benefited from others, see <https://www3.nd.edu/~kkelley/site/MBESS.html> for a detailed
list of those that have contributed and other details.
Author: Ken Kelley [aut, cre]
Maintainer: Ken Kelley <kkelley@nd.edu>
Diff between MBESS versions 4.9.0 dated 2022-02-09 and 4.9.1 dated 2022-07-11
DESCRIPTION | 11 ++++++----- MD5 | 14 +++++++------- R/ci.omega2.R | 7 ++++--- R/ci.snr.R | 2 +- R/ss.aipe.reliability.R | 16 ++++++++-------- R/ss.aipe.rmsea.sensitivity.R | 6 +++--- R/vit.fitted.R | 2 +- man/ci.omega2.Rd | 8 ++++---- 8 files changed, 34 insertions(+), 32 deletions(-)
Title: A Framework for Dimensionality Reduction
Description: A collection of dimensionality reduction
techniques from R packages and a common
interface for calling the methods.
Author: Guido Kraemer [aut, cre]
Maintainer: Guido Kraemer <guido.kraemer@uni-leipzig.de>
Diff between dimRed versions 0.2.5 dated 2022-03-10 and 0.2.6 dated 2022-07-11
dimRed-0.2.5/dimRed/man/LLE-class.Rd |only dimRed-0.2.6/dimRed/DESCRIPTION | 14 dimRed-0.2.6/dimRed/MD5 | 137 ++++----- dimRed-0.2.6/dimRed/NAMESPACE | 2 dimRed-0.2.6/dimRed/R/autoencoder.R | 3 dimRed-0.2.6/dimRed/R/dataSets.R | 5 dimRed-0.2.6/dimRed/R/diffmap.R | 8 dimRed-0.2.6/dimRed/R/dimRedMethod-class.R | 52 +-- dimRed-0.2.6/dimRed/R/drr.R | 6 dimRed-0.2.6/dimRed/R/embed.R | 1 dimRed-0.2.6/dimRed/R/fastica.R | 6 dimRed-0.2.6/dimRed/R/get_info.R | 13 dimRed-0.2.6/dimRed/R/graph_embed.R | 22 + dimRed-0.2.6/dimRed/R/hlle.R | 7 dimRed-0.2.6/dimRed/R/isomap.R | 7 dimRed-0.2.6/dimRed/R/kpca.R | 7 dimRed-0.2.6/dimRed/R/l1pca.R | 5 dimRed-0.2.6/dimRed/R/leim.R | 6 dimRed-0.2.6/dimRed/R/lle.R | 145 +++++----- dimRed-0.2.6/dimRed/R/loe.R | 3 dimRed-0.2.6/dimRed/R/misc.R | 6 dimRed-0.2.6/dimRed/R/mixColorSpaces.R | 9 dimRed-0.2.6/dimRed/R/nmds.R | 6 dimRed-0.2.6/dimRed/R/nnmf.R | 6 dimRed-0.2.6/dimRed/R/pca.R | 3 dimRed-0.2.6/dimRed/R/plot.R | 18 - dimRed-0.2.6/dimRed/R/quality.R | 23 - dimRed-0.2.6/dimRed/R/tsne.R | 3 dimRed-0.2.6/dimRed/R/umap.R | 3 dimRed-0.2.6/dimRed/build/vignette.rds |binary dimRed-0.2.6/dimRed/inst/doc/dimensionality-reduction.pdf |binary dimRed-0.2.6/dimRed/man/AutoEncoder-class.Rd | 1 dimRed-0.2.6/dimRed/man/DRR-class.Rd | 4 dimRed-0.2.6/dimRed/man/DiffusionMaps-class.Rd | 4 dimRed-0.2.6/dimRed/man/DrL-class.Rd | 5 dimRed-0.2.6/dimRed/man/FastICA-class.Rd | 4 dimRed-0.2.6/dimRed/man/FruchtermanReingold-class.Rd | 5 dimRed-0.2.6/dimRed/man/HLLE-class.Rd | 5 dimRed-0.2.6/dimRed/man/Isomap-class.Rd | 4 dimRed-0.2.6/dimRed/man/KamadaKawai-class.Rd | 4 dimRed-0.2.6/dimRed/man/LaplacianEigenmaps-class.Rd | 3 dimRed-0.2.6/dimRed/man/MDS-class.Rd | 1 dimRed-0.2.6/dimRed/man/NNMF-class.Rd | 4 dimRed-0.2.6/dimRed/man/PCA-class.Rd | 4 dimRed-0.2.6/dimRed/man/PCA_L1-class.Rd | 3 dimRed-0.2.6/dimRed/man/UMAP-class.Rd | 1 dimRed-0.2.6/dimRed/man/dataSets.Rd | 5 dimRed-0.2.6/dimRed/man/dimRedMethod-class.Rd | 9 dimRed-0.2.6/dimRed/man/dimRedMethodList.Rd | 6 dimRed-0.2.6/dimRed/man/getRotationMatrix.Rd | 13 dimRed-0.2.6/dimRed/man/installSuggests.Rd | 5 dimRed-0.2.6/dimRed/man/kPCA-class.Rd | 5 dimRed-0.2.6/dimRed/man/mixColorRamps.Rd | 9 dimRed-0.2.6/dimRed/man/nMDS-class.Rd | 4 dimRed-0.2.6/dimRed/man/plot.Rd | 14 dimRed-0.2.6/dimRed/man/plot_R_NX.Rd | 4 dimRed-0.2.6/dimRed/man/quality.Rd | 4 dimRed-0.2.6/dimRed/man/tSNE-class.Rd | 1 dimRed-0.2.6/dimRed/tests/testthat/test_HLLE.R | 5 dimRed-0.2.6/dimRed/tests/testthat/test_NNMF.R | 2 dimRed-0.2.6/dimRed/tests/testthat/test_UMAP.R | 8 dimRed-0.2.6/dimRed/tests/testthat/test_autoencoder.R | 16 - dimRed-0.2.6/dimRed/tests/testthat/test_diffusion_maps.R | 2 dimRed-0.2.6/dimRed/tests/testthat/test_dimRedResult_class.R | 8 dimRed-0.2.6/dimRed/tests/testthat/test_fastICA.R | 35 +- dimRed-0.2.6/dimRed/tests/testthat/test_high_level_functions.R | 9 dimRed-0.2.6/dimRed/tests/testthat/test_isomap.R | 45 +-- dimRed-0.2.6/dimRed/tests/testthat/test_misc_functions.R | 23 - dimRed-0.2.6/dimRed/tests/testthat/test_quality.R | 75 ++--- dimRed-0.2.6/dimRed/vignettes/Makefile | 9 70 files changed, 538 insertions(+), 356 deletions(-)
Title: 64-Bit Extension of the SPArse Matrix R Package 'spam'
Description: Provides the Fortran code of the R package 'spam'
with 64-bit integers. Loading this package together with the R package
spam enables the sparse matrix class spam to handle huge sparse matrices
with more than 2^31-1 non-zero elements.
Documentation is provided in Gerber, Moesinger and Furrer (2017) <doi:10.1016/j.cageo.2016.11.015>.
Author: Reinhard Furrer [aut, cre] ,
Florian Gerber [aut] ,
Roman Flury [aut] ,
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Youcef Saad [ctb] ,
Esmond G. Ng [ctb] ,
Barry W. Peyton [ctb] ,
Joseph W.H. Liu [ctb] ,
Alan D. George [ctb] ,
Lehoucq B. Rich [ctb] [...truncated...]
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam64 versions 2.8-0 dated 2022-01-05 and 2.9-0 dated 2022-07-11
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- inst/CITATION | 4 ++-- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Get Executing Script's Path, from 'RStudio', 'Rgui', 'Rscript'
(Shells Including Windows Command-Line / / Unix Terminal), and
'source'
Description: Determine the full path of the executing script. Works when
running a line or selection from a script in 'RStudio' and 'Rgui', when
using 'source', 'sys.source', 'debugSource' in 'RStudio', and
'testthat::source_file', and when running R from a shell.
Author: Andrew Simmons
Maintainer: Andrew Simmons <akwsimmo@gmail.com>
Diff between this.path versions 0.7.0 dated 2022-04-23 and 0.8.0 dated 2022-07-11
this.path-0.7.0/this.path/R/ArgumentParser-class.R |only this.path-0.7.0/this.path/R/Check_This.R |only this.path-0.7.0/this.path/R/Hooks_for_Namespace_Events.R |only this.path-0.7.0/this.path/R/R.R |only this.path-0.7.0/this.path/R/build_this.R |only this.path-0.7.0/this.path/R/commandArgs.R |only this.path-0.7.0/this.path/R/commandPrompt.R |only this.path-0.7.0/this.path/R/commandQuote.R |only this.path-0.7.0/this.path/R/dedent.R |only this.path-0.7.0/this.path/R/delayedAssign2.R |only this.path-0.7.0/this.path/R/error.R |only this.path-0.7.0/this.path/R/file.open.R |only this.path-0.7.0/this.path/R/help.R |only this.path-0.7.0/this.path/R/here.R |only this.path-0.7.0/this.path/R/list.files2.R |only this.path-0.7.0/this.path/R/normalizeAgainst.R |only this.path-0.7.0/this.path/R/path.contract.R |only this.path-0.7.0/this.path/R/path.exists.R |only this.path-0.7.0/this.path/R/pseudoglobalenv.R |only this.path-0.7.0/this.path/R/readArgs.R |only this.path-0.7.0/this.path/R/supports.8.bit.color.R |only this.path-0.7.0/this.path/R/withArgs.R |only this.path-0.7.0/this.path/R/write.code.R |only this.path-0.7.0/this.path/inst/extdata/r_editor_regexp_ge_4.2.0.txt |only this.path-0.7.0/this.path/inst/extdata/r_editor_regexp_lt_4.2.0.txt |only this.path-0.7.0/this.path/inst/extdata/testing_coordinates.R |only this.path-0.7.0/this.path/inst/extdata/untitled_ge_4.2.0.txt |only this.path-0.7.0/this.path/inst/extdata/untitled_lt_4.2.0.txt |only this.path-0.7.0/this.path/inst/extdata/write_r_editor_regexp.R |only this.path-0.7.0/this.path/man/this.path-defunct.Rd |only this.path-0.7.0/this.path/man/this.path2.Rd |only this.path-0.8.0/this.path/DESCRIPTION | 6 this.path-0.8.0/this.path/MD5 | 64 -- this.path-0.8.0/this.path/NAMESPACE | 111 ---- this.path-0.8.0/this.path/NEWS |only this.path-0.8.0/this.path/R/as.relative.path.R | 20 this.path-0.8.0/this.path/R/hooks-for-namespace-events.R |only this.path-0.8.0/this.path/R/normalizeURL.R | 38 - this.path-0.8.0/this.path/R/this.path.R | 266 ++++++---- this.path-0.8.0/this.path/R/utils.R |only this.path-0.8.0/this.path/build/partial.rdb |binary this.path-0.8.0/this.path/inst/NEWS.Rd |only this.path-0.8.0/this.path/inst/extdata/r_editor_regexp_not_ucrt.txt |only this.path-0.8.0/this.path/inst/extdata/r_editor_regexp_ucrt.txt |only this.path-0.8.0/this.path/inst/extdata/untitled_not_ucrt.txt |only this.path-0.8.0/this.path/inst/extdata/untitled_ucrt.txt |only this.path-0.8.0/this.path/man/R.from.shell.Rd | 2 this.path-0.8.0/this.path/man/as.relative.path.Rd | 4 this.path-0.8.0/this.path/man/check.path.Rd | 2 this.path-0.8.0/this.path/man/shFILE.Rd | 53 + this.path-0.8.0/this.path/man/this.path-deprecated.Rd |only this.path-0.8.0/this.path/man/this.path-package.Rd | 17 this.path-0.8.0/this.path/man/this.path.Rd | 93 +++ 53 files changed, 335 insertions(+), 341 deletions(-)
Title: Fast and Portable Character String Processing Facilities
Description: A collection of character string/text/natural language
processing tools for pattern searching (e.g., with 'Java'-like regular
expressions or the 'Unicode' collation algorithm), random string generation,
case mapping, string transliteration, concatenation, sorting, padding,
wrapping, Unicode normalisation, date-time formatting and parsing,
and many more. They are fast, consistent, convenient, and -
thanks to 'ICU' (International Components for Unicode) -
portable across all locales and platforms.
Documentation about 'stringi' is provided
via its website at <https://stringi.gagolewski.com/> and
the paper by Gagolewski (2022, <doi:10.18637/jss.v103.i02>).
Author: Marek Gagolewski [aut, cre, cph] ,
Bartek Tartanus [ctb], and others ;
Unicode, Inc. and others
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between stringi versions 1.7.6 dated 2021-11-29 and 1.7.8 dated 2022-07-11
stringi-1.7.6/stringi/R/todo_charclass.R |only stringi-1.7.6/stringi/R/todo_justify.R |only stringi-1.7.6/stringi/R/todo_rbnf.R |only stringi-1.7.6/stringi/R/todo_search_in.R |only stringi-1.7.6/stringi/R/todo_split.R |only stringi-1.7.6/stringi/src/stri_TODO_justify.cpp |only stringi-1.7.6/stringi/src/stri_TODO_splitpos.cpp |only stringi-1.7.6/stringi/src/stri_TODO_uchar.cpp |only stringi-1.7.8/stringi/DESCRIPTION | 17 stringi-1.7.8/stringi/INSTALL | 37 +- stringi-1.7.8/stringi/LICENSE | 4 stringi-1.7.8/stringi/MD5 | 287 +++++++--------- stringi-1.7.8/stringi/NEWS | 20 + stringi-1.7.8/stringi/R/length.R | 2 stringi-1.7.8/stringi/R/opts.R | 5 stringi-1.7.8/stringi/R/stringi-package.R | 14 stringi-1.7.8/stringi/R/time_format.R | 9 stringi-1.7.8/stringi/R/trans_normalization.R | 6 stringi-1.7.8/stringi/build |only stringi-1.7.8/stringi/configure | 26 - stringi-1.7.8/stringi/configure.ac | 43 +- stringi-1.7.8/stringi/inst/CITATION | 28 - stringi-1.7.8/stringi/man/about_arguments.Rd | 2 stringi-1.7.8/stringi/man/about_encoding.Rd | 2 stringi-1.7.8/stringi/man/about_locale.Rd | 2 stringi-1.7.8/stringi/man/about_search.Rd | 2 stringi-1.7.8/stringi/man/about_search_boundaries.Rd | 2 stringi-1.7.8/stringi/man/about_search_charclass.Rd | 2 stringi-1.7.8/stringi/man/about_search_coll.Rd | 2 stringi-1.7.8/stringi/man/about_search_fixed.Rd | 2 stringi-1.7.8/stringi/man/about_search_regex.Rd | 2 stringi-1.7.8/stringi/man/about_stringi.Rd | 14 stringi-1.7.8/stringi/man/operator_add.Rd | 2 stringi-1.7.8/stringi/man/operator_compare.Rd | 2 stringi-1.7.8/stringi/man/operator_dollar.Rd | 2 stringi-1.7.8/stringi/man/stri_compare.Rd | 2 stringi-1.7.8/stringi/man/stri_count.Rd | 2 stringi-1.7.8/stringi/man/stri_count_boundaries.Rd | 2 stringi-1.7.8/stringi/man/stri_datetime_add.Rd | 2 stringi-1.7.8/stringi/man/stri_datetime_create.Rd | 2 stringi-1.7.8/stringi/man/stri_datetime_fields.Rd | 2 stringi-1.7.8/stringi/man/stri_datetime_format.Rd | 11 stringi-1.7.8/stringi/man/stri_datetime_fstr.Rd | 2 stringi-1.7.8/stringi/man/stri_datetime_now.Rd | 2 stringi-1.7.8/stringi/man/stri_datetime_symbols.Rd | 2 stringi-1.7.8/stringi/man/stri_detect.Rd | 2 stringi-1.7.8/stringi/man/stri_dup.Rd | 2 stringi-1.7.8/stringi/man/stri_duplicated.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_detect.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_detect2.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_fromutf32.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_info.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_isascii.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_isutf16.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_isutf8.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_list.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_mark.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_set.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_toascii.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_tonative.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_toutf32.Rd | 2 stringi-1.7.8/stringi/man/stri_enc_toutf8.Rd | 2 stringi-1.7.8/stringi/man/stri_encode.Rd | 2 stringi-1.7.8/stringi/man/stri_escape_unicode.Rd | 2 stringi-1.7.8/stringi/man/stri_extract.Rd | 2 stringi-1.7.8/stringi/man/stri_extract_boundaries.Rd | 2 stringi-1.7.8/stringi/man/stri_flatten.Rd | 2 stringi-1.7.8/stringi/man/stri_info.Rd | 3 stringi-1.7.8/stringi/man/stri_isempty.Rd | 2 stringi-1.7.8/stringi/man/stri_join.Rd | 2 stringi-1.7.8/stringi/man/stri_join_list.Rd | 2 stringi-1.7.8/stringi/man/stri_length.Rd | 2 stringi-1.7.8/stringi/man/stri_list2matrix.Rd | 2 stringi-1.7.8/stringi/man/stri_locale_info.Rd | 2 stringi-1.7.8/stringi/man/stri_locale_list.Rd | 2 stringi-1.7.8/stringi/man/stri_locale_set.Rd | 2 stringi-1.7.8/stringi/man/stri_locate.Rd | 2 stringi-1.7.8/stringi/man/stri_locate_boundaries.Rd | 2 stringi-1.7.8/stringi/man/stri_match.Rd | 2 stringi-1.7.8/stringi/man/stri_na2empty.Rd | 2 stringi-1.7.8/stringi/man/stri_numbytes.Rd | 2 stringi-1.7.8/stringi/man/stri_opts_brkiter.Rd | 2 stringi-1.7.8/stringi/man/stri_opts_collator.Rd | 5 stringi-1.7.8/stringi/man/stri_opts_fixed.Rd | 2 stringi-1.7.8/stringi/man/stri_opts_regex.Rd | 2 stringi-1.7.8/stringi/man/stri_order.Rd | 2 stringi-1.7.8/stringi/man/stri_pad.Rd | 2 stringi-1.7.8/stringi/man/stri_rand_lipsum.Rd | 2 stringi-1.7.8/stringi/man/stri_rand_shuffle.Rd | 2 stringi-1.7.8/stringi/man/stri_rand_strings.Rd | 2 stringi-1.7.8/stringi/man/stri_rank.Rd | 2 stringi-1.7.8/stringi/man/stri_read_lines.Rd | 2 stringi-1.7.8/stringi/man/stri_read_raw.Rd | 2 stringi-1.7.8/stringi/man/stri_remove_empty.Rd | 2 stringi-1.7.8/stringi/man/stri_replace.Rd | 2 stringi-1.7.8/stringi/man/stri_replace_na.Rd | 2 stringi-1.7.8/stringi/man/stri_replace_rstr.Rd | 2 stringi-1.7.8/stringi/man/stri_reverse.Rd | 3 stringi-1.7.8/stringi/man/stri_sort.Rd | 2 stringi-1.7.8/stringi/man/stri_sort_key.Rd | 2 stringi-1.7.8/stringi/man/stri_split.Rd | 2 stringi-1.7.8/stringi/man/stri_split_boundaries.Rd | 2 stringi-1.7.8/stringi/man/stri_split_lines.Rd | 2 stringi-1.7.8/stringi/man/stri_sprintf.Rd | 2 stringi-1.7.8/stringi/man/stri_startsendswith.Rd | 2 stringi-1.7.8/stringi/man/stri_stats_general.Rd | 2 stringi-1.7.8/stringi/man/stri_stats_latex.Rd | 2 stringi-1.7.8/stringi/man/stri_sub.Rd | 2 stringi-1.7.8/stringi/man/stri_sub_all.Rd | 2 stringi-1.7.8/stringi/man/stri_subset.Rd | 2 stringi-1.7.8/stringi/man/stri_timezone_info.Rd | 2 stringi-1.7.8/stringi/man/stri_timezone_list.Rd | 2 stringi-1.7.8/stringi/man/stri_timezone_set.Rd | 2 stringi-1.7.8/stringi/man/stri_trans_casemap.Rd | 2 stringi-1.7.8/stringi/man/stri_trans_char.Rd | 2 stringi-1.7.8/stringi/man/stri_trans_general.Rd | 2 stringi-1.7.8/stringi/man/stri_trans_list.Rd | 2 stringi-1.7.8/stringi/man/stri_trans_nf.Rd | 6 stringi-1.7.8/stringi/man/stri_trim.Rd | 2 stringi-1.7.8/stringi/man/stri_unescape_unicode.Rd | 2 stringi-1.7.8/stringi/man/stri_unique.Rd | 2 stringi-1.7.8/stringi/man/stri_width.Rd | 4 stringi-1.7.8/stringi/man/stri_wrap.Rd | 2 stringi-1.7.8/stringi/man/stri_write_lines.Rd | 2 stringi-1.7.8/stringi/src/stri_brkiter.cpp | 6 stringi-1.7.8/stringi/src/stri_collator.cpp | 4 stringi-1.7.8/stringi/src/stri_container_base.cpp | 5 stringi-1.7.8/stringi/src/stri_container_base.h | 2 stringi-1.7.8/stringi/src/stri_container_bytesearch.cpp | 4 stringi-1.7.8/stringi/src/stri_container_listint.cpp | 4 stringi-1.7.8/stringi/src/stri_container_listraw.cpp | 4 stringi-1.7.8/stringi/src/stri_container_regex.cpp | 6 stringi-1.7.8/stringi/src/stri_container_utf16.cpp | 1 stringi-1.7.8/stringi/src/stri_container_utf8.cpp | 2 stringi-1.7.8/stringi/src/stri_container_utf8.h | 2 stringi-1.7.8/stringi/src/stri_exception.h | 2 stringi-1.7.8/stringi/src/stri_external.h | 2 stringi-1.7.8/stringi/src/stri_join.cpp | 100 +++-- stringi-1.7.8/stringi/src/stri_macros.h | 2 stringi-1.7.8/stringi/src/stri_messages.h | 4 stringi-1.7.8/stringi/src/stri_prepare_arg.cpp | 44 +- stringi-1.7.8/stringi/src/stri_search_regex_locate.cpp | 4 stringi-1.7.8/stringi/src/stri_search_regex_match.cpp | 8 stringi-1.7.8/stringi/src/stri_sprintf.cpp | 8 stringi-1.7.8/stringi/src/stri_string8.h | 2 stringi-1.7.8/stringi/src/stri_string8buf.h | 2 stringi-1.7.8/stringi/src/stri_sub.cpp | 20 - stringi-1.7.8/stringi/src/stri_time_calendar.cpp | 10 stringi-1.7.8/stringi/src/stri_time_format.cpp | 10 149 files changed, 635 insertions(+), 357 deletions(-)
Title: SPArse Matrix
Description: Set of functions for sparse matrix algebra.
Differences with other sparse matrix packages are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within G(M)RF.
(4) and it is fast and scalable (with the extension package spam64).
Documentation about 'spam' is provided by vignettes included in this package, see also Furrer and Sain (2010) <doi:10.18637/jss.v036.i10>; see 'citation("spam")' for details.
Author: Reinhard Furrer [aut, cre] ,
Florian Gerber [aut] ,
Roman Flury [aut] ,
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Youcef Saad [ctb] ,
Esmond G. Ng [ctb] ,
Barry W. Peyton [ctb] ,
Joseph W.H. Liu [ctb] ,
Alan D. George [ctb] ,
Lehoucq B. Rich [ctb] [...truncated...]
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam versions 2.8-0 dated 2022-01-06 and 2.9-0 dated 2022-07-11
DESCRIPTION | 10 +- MD5 | 110 +++++++++++----------- NAMESPACE | 16 ++- NEWS.md | 56 +++++++++++ R/covmat.R | 153 +++++++++++++++++++++++++++---- R/eigen.R | 10 ++ R/helper.R | 2 R/mle.R | 51 +++++++--- R/rgrf.R |only R/rmvnorm.R | 33 ++++++ build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 4 inst/doc/spam.pdf |binary man/Math.Rd | 2 man/UScounties.Rd | 4 man/USprecip.Rd | 8 - man/adjacency.Rd | 2 man/allequal.Rd | 2 man/cbind.Rd | 2 man/constructors.Rd | 2 man/covmat.Rd | 26 ++++- man/det.Rd | 2 man/diff.Rd | 2 man/eigen.Rd | 14 +- man/foreign.Rd | 3 man/germany.plot.Rd | 3 man/germanydata.Rd | 9 - man/image.Rd | 4 man/isSymmetric.Rd | 2 man/methods.Rd | 2 man/mle.Rd | 33 +++--- man/pad.Rd | 4 man/permutation.Rd | 4 man/powerboost.Rd | 2 man/precmat.Rd | 2 man/print.Rd | 2 man/random.Rd | 2 man/rgrf.Rd |only man/rmvnorm.Rd | 2 man/rmvnorm.cond.Rd | 25 +++-- man/rmvt.Rd |only man/rowSums.Rd | 4 man/triplet.Rd | 10 -- man/validate_spam.Rd | 4 tests/Examples |only tests/demo_cholesky.Rout.save | 6 - tests/demo_jss10-example1.Rout.save | 6 - tests/demo_jss10-figures-table.Rout.save | 6 - tests/demo_jss15-BYM.Rout.save | 6 - tests/demo_jss15-Leroux.Rout.save | 6 - tests/demo_spam.Rout.save | 6 - tests/demo_timing.Rout.save | 6 - tests/jss_areal_counts.Rout.save | 6 - tests/testthat.Rout.save | 13 +- tests/testthat/test-covmat.R | 41 ++++++++ tests/testthat/test-mle.R | 10 ++ tests/testthat/test-rmvnorm.R | 143 ++++++++++++++++++++++++++++ 58 files changed, 669 insertions(+), 214 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use
in photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse ratios and
other derived quantities from spectral data. Local maxima and minima: peaks,
valleys and spikes. Conversion between energy-and photon-based units.
Wavelength interpolation. Astronomical calculations related solar angles and
day length. Colours and vision. This package is part of the 'r4photobiology'
suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] ,
Titta K. Kotilainen [ctb] ,
Glenn Davis [ctb],
Agnese Fazio [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.10.10 dated 2022-03-25 and 0.10.11 dated 2022-07-11
DESCRIPTION | 18 MD5 | 347 ++--- NAMESPACE | 59 NEWS.md | 51 R/copy.attr.R | 19 R/join.mspct.R | 301 ++-- R/mspct.mean.se.band.r |only R/mspct.mean.se.r | 6 R/mspct.methods.R | 9 R/mspct.row.funs.r | 27 R/na.rm.R | 22 R/rbindspct.r | 104 + R/solutes.data.r |only R/spct.classes.r | 492 +++++++ R/spct.clean.r | 52 R/spct.fscale.r | 87 + R/spct.fshift.r | 23 R/spct.metadata.r | 7 R/spct.new.r | 225 ++- R/spct.normalize.r | 48 R/spct.operators.r | 122 + R/spct.peaks.r | 270 +++- R/spct.ratios.R | 3 R/spct.smooth.spct.r | 104 + R/spct.spikes.R | 109 + R/spct.summaries.r | 66 R/spct.tag.r | 3 R/spct.trim.r | 13 R/spct.utils.r | 31 R/water.vapour.R | 2 R/zmspct.classes.R | 143 ++ README.md | 10 build/partial.rdb |binary build/vignette.rds |binary data/A.illuminant.spct.rda |binary data/D2-FEL-constants.rda |binary data/D65.illuminant.spct.rda |binary data/Ler-leaf-spct.rda |binary data/beesxyz.spct.rda |binary data/black_body.spct.rda |binary data/ccd.spct.rda |binary data/ciev10.spct.rda |binary data/ciev2.spct.rda |binary data/ciexyzCC10.spct.rda |binary data/ciexyzCC2.spct.rda |binary data/ciexyzCMF10.spct.rda |binary data/ciexyzCMF2.spct.rda |binary data/clear.spct.rda |binary data/clear_body.spct.rda |binary data/cone_fundamentals10.spct.rda |binary data/filter-cps-mspct.rda |binary data/green_leaf.spct.rda |binary data/opaque.spct.rda |binary data/photodiode.spct.rda |binary data/polyester.spct.rda |binary data/r4p-pkgs.rda |binary data/solutes.rda |only data/sun.daily.data.rda |binary data/sun.daily.spct.rda |binary data/sun.data.rda |binary data/sun.spct.rda |binary data/white-led-spct.rda |binary data/white_body.spct.rda |binary data/yellow.gel.rda |binary inst/doc/userguide-0-r4p-introduction.R |only inst/doc/userguide-0-r4p-introduction.Rmd |only inst/doc/userguide-0-r4p-introduction.html |only inst/doc/userguide-1-radiation.R | 1 inst/doc/userguide-1-radiation.Rmd | 56 inst/doc/userguide-1-radiation.html | 1956 +++++++++++++++-------------- inst/doc/userguide-2-astronomy.Rmd | 2 inst/doc/userguide-2-astronomy.html | 111 - man/A.illuminant.spct.Rd | 2 man/D65.illuminant.spct.Rd | 2 man/Ler_leaf.spct.Rd | 2 man/Ler_leaf_rflt.spct.Rd | 2 man/Ler_leaf_trns.spct.Rd | 2 man/Ler_leaf_trns_i.spct.Rd | 2 man/add_attr2tb.Rd | 2 man/as.calibration_mspct.Rd | 1 man/as.calibration_spct.Rd | 1 man/as.chroma_mspct.Rd | 1 man/as.chroma_spct.Rd | 1 man/as.cps_mspct.Rd | 1 man/as.cps_spct.Rd | 1 man/as.filter_mspct.Rd | 1 man/as.filter_spct.Rd | 31 man/as.generic_mspct.Rd | 1 man/as.generic_spct.Rd | 1 man/as.object_mspct.Rd | 1 man/as.object_spct.Rd | 1 man/as.raw_mspct.Rd | 1 man/as.raw_spct.Rd | 1 man/as.reflector_mspct.Rd | 1 man/as.reflector_spct.Rd | 1 man/as.response_mspct.Rd | 1 man/as.response_spct.Rd | 1 man/as.solute_mspct.Rd |only man/as.solute_spct.Rd |only man/as.source_mspct.Rd | 1 man/as.source_spct.Rd | 1 man/black_body.spct.Rd | 2 man/ccd.spct.Rd | 2 man/check_spct.Rd | 12 man/clean.Rd | 18 man/clear.spct.Rd | 2 man/clear_body.spct.Rd | 2 man/despike.Rd | 28 man/drop_user_cols.Rd | 5 man/extract.Rd | 3 man/filter_cps.mspct.Rd | 2 man/find_wls.Rd | 172 +- man/fscale.Rd | 59 man/fshift.Rd | 6 man/generic_mspct.Rd | 5 man/getFilterProperties.Rd | 2 man/getHowMeasured.Rd | 2 man/getInstrDesc.Rd | 2 man/getInstrSettings.Rd | 2 man/getKType.Rd |only man/getSoluteProperties.Rd |only man/getWhatMeasured.Rd | 2 man/getWhenMeasured.Rd | 2 man/getWhereMeasured.Rd | 2 man/get_attributes.Rd | 7 man/green_leaf.spct.Rd | 2 man/is.generic_mspct.Rd | 3 man/is.generic_spct.Rd | 3 man/is.summary_generic_spct.Rd | 3 man/isValidInstrDesc.Rd | 2 man/isValidInstrSettings.Rd | 2 man/is_absorbance_based.Rd | 1 man/is_mole_based.Rd |only man/is_photon_based.Rd | 3 man/join_mspct.Rd | 68 - man/na.omit.Rd | 6 man/normalize.Rd | 12 man/opaque.spct.Rd | 2 man/peaks.Rd | 30 man/phenylalanine.spct.Rd |only man/photobiology-package.Rd | 4 man/photodiode.spct.Rd | 2 man/polyester.spct.Rd | 2 man/q_ratio.Rd | 3 man/s_mean_se.Rd | 6 man/s_mean_se_band.Rd |only man/se.m.Rd |only man/se.p.Rd |only man/select_spct_attributes.Rd | 2 man/setFilterProperties.Rd | 2 man/setGenericSpct.Rd | 47 man/setHowMeasured.Rd | 2 man/setInstrDesc.Rd | 5 man/setInstrSettings.Rd | 2 man/setKType.Rd |only man/setSoluteProperties.Rd |only man/setWhatMeasured.Rd | 2 man/setWhenMeasured.Rd | 2 man/setWhereMeasured.Rd | 2 man/smooth_spct.Rd | 12 man/source_spct.Rd | 126 + man/spct_attr2tb.Rd | 2 man/spct_metadata.Rd | 2 man/spikes.Rd | 18 man/split2mspct.Rd | 282 ++-- man/subset2mspct.Rd | 1 man/sun.daily.data.Rd | 2 man/sun.daily.spct.Rd | 2 man/sun.data.Rd | 2 man/sun.spct.Rd | 2 man/thin_wl.Rd | 5 man/trimInstrDesc.Rd | 2 man/trimInstrSettings.Rd | 2 man/valleys.Rd | 30 man/water.spct.Rd |only man/white_body.spct.Rd | 2 man/white_led.cps_spct.Rd | 2 man/white_led.raw_spct.Rd | 2 man/white_led.source_spct.Rd | 2 man/wls_at_target.Rd | 73 - man/yellow_gel.spct.Rd | 2 vignettes/userguide-0-r4p-introduction.Rmd |only vignettes/userguide-1-radiation.Rmd | 56 vignettes/userguide-2-astronomy.Rmd | 2 184 files changed, 4298 insertions(+), 1855 deletions(-)
Title: Local Regression, Likelihood and Density Estimation
Description: Local regression, likelihood and density estimation methods as described in the 1999 book by Loader.
Author: Catherine Loader [aut],
Jiayang Sun [ctb],
Lucent Technologies [cph],
Andy Liaw [cre]
Maintainer: Andy Liaw <andy_liaw@merck.com>
Diff between locfit versions 1.5-9.5 dated 2022-03-03 and 1.5-9.6 dated 2022-07-11
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/locfit.r | 10 +++++----- man/livmet.Rd | 2 +- src/local.h | 3 ++- 5 files changed, 16 insertions(+), 15 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Description: Measurement and partitioning of diversity, based on Tsallis entropy, following Marcon and Herault (2015) <doi:10.18637/jss.v067.i08>.
'entropart' provides functions to calculate alpha, beta and gamma diversity of communities, including phylogenetic and functional diversity.
Estimation-bias corrections are available.
Author: Eric Marcon [aut, cre] ,
Bruno Herault [aut]
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between entropart versions 1.6-10 dated 2022-04-02 and 1.6-11 dated 2022-07-11
DESCRIPTION | 7 MD5 | 8 NEWS.md | 11 - build/vignette.rds |binary inst/doc/entropart.html | 459 +++++++++++++++++++++++++++++++++++++++++------- 5 files changed, 416 insertions(+), 69 deletions(-)
Title: Chromatographic File Converter
Description: Reads chromatograms from binary formats into R objects. Currently supports conversion of 'Agilent ChemStation', 'Agilent MassHunter', and 'ThermoRaw' files as well as various text-based formats. Utilizes file parsers from external libraries, such as 'Aston' <https://github.com/bovee/aston>, 'Entab' <https://github.com/bovee/entab>, and 'ThermoRawFileParser' <https://github.com/compomics/ThermoRawFileParser>.
Author: Ethan Bass [aut, cre]
Maintainer: Ethan Bass <ethanbass@gmail.com>
Diff between chromConverter versions 0.1.0 dated 2022-04-19 and 0.2.1 dated 2022-07-11
DESCRIPTION | 24 +-- MD5 | 46 ++++-- NAMESPACE | 21 ++ NEWS.md | 33 ++++ R/attach_metadata.R |only R/call_openchrom.R |only R/parsers.R |only R/read_chroms.R | 280 ++++++++++++++++++++----------------- R/read_thermoraw.R |only R/utils.R |only R/zzz.R | 2 README.md | 111 +++++++++++++- build |only inst/CITATION |only inst/extdata |only inst/openchrom_template.xml |only inst/shell |only man/attach_metadata.Rd |only man/call_entab.Rd |only man/call_openchrom.Rd |only man/configure_aston.Rd |only man/figures |only man/read_chemstation_csv.Rd |only man/read_chromeleon.Rd |only man/read_chroms.Rd | 66 +++++--- man/read_mzml.Rd |only man/read_shimadzu.Rd |only man/read_thermoraw.Rd |only man/read_waters_arw.Rd |only man/sp_converter.Rd | 15 + man/uv_converter.Rd | 19 ++ tests/testthat/helpers.R | 8 + tests/testthat/test-read_chroms.R | 52 +++++- tests/testthat/testdata/ladder.txt |only 34 files changed, 477 insertions(+), 200 deletions(-)
More information about chromConverter at CRAN
Permanent link
Title: Tools for Bayesian Analyses
Description: Provides tools for conducting Bayesian analyses. The package contains
functions for creating a wide range of prior distribution objects, mixing posterior
samples from 'JAGS' and 'Stan' models, plotting posterior distributions, and etc...
The tools for working with prior distribution span from visualization, generating 'JAGS'
and 'bridgesampling' syntax to basic functions such as rng, quantile, and distribution functions.
Author: Frantisek Bartos [aut, cre]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between BayesTools versions 0.2.11 dated 2022-06-15 and 0.2.12 dated 2022-07-11
DESCRIPTION | 16 +++--- MD5 | 28 +++++------ NAMESPACE | 1 NEWS.md | 12 ++++ R/JAGS-fit.R | 2 R/model-averaging.R | 66 ++++++-------------------- R/summary-tables.R | 86 +++++++++++++++++++++++++++++++++-- R/tools.R | 44 +++++++++++++++++ R/zzz.R | 4 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/ComparisonR.html | 44 ++++++++--------- inst/doc/SpikeAndSlab.html | 4 - man/BayesTools_model_tables.Rd | 9 +++ tests/testthat/test-summary-tables.R | 29 +++++++++-- 15 files changed, 235 insertions(+), 110 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-11-02 2.0.2
2015-09-07 1.5.3
2015-03-04 1.5.2
2014-03-26 1.5.0
2014-02-03 1.4.3
2013-11-21 1.4.1
2013-09-26 1.4
2013-08-09 1.3
2013-07-09 1.1
2013-06-26 1.0
Title: Extract and Clean World Football (Soccer) Data
Description: Allow users to obtain clean and tidy
football (soccer) game, team and player data. Data is collected from a
number of popular sites, including 'FBref',
transfer and valuations data from
'Transfermarkt'<https://www.transfermarkt.com/> and shooting location
and other match stats data from 'Understat'<https://understat.com/>
and 'fotmob'<https://www.fotmob.com/>. It gives users the
ability to access data more efficiently, rather than having to export
data tables to files before being able to complete their analysis.
Author: Jason Zivkovic [aut, cre, cph],
Tony ElHabr [ctb],
Tan Ho [ctb]
Maintainer: Jason Zivkovic <jaseziv83@gmail.com>
Diff between worldfootballR versions 0.5.6 dated 2022-06-15 and 0.5.7 dated 2022-07-11
worldfootballR-0.5.6/worldfootballR/tests/testthat/test-load-fbref.R |only worldfootballR-0.5.7/worldfootballR/DESCRIPTION | 8 worldfootballR-0.5.7/worldfootballR/MD5 | 29 worldfootballR-0.5.7/worldfootballR/NAMESPACE | 4 worldfootballR-0.5.7/worldfootballR/NEWS.md | 18 worldfootballR-0.5.7/worldfootballR/R/fotmob_leagues.R | 21 worldfootballR-0.5.7/worldfootballR/R/fotmob_stats.R | 102 + worldfootballR-0.5.7/worldfootballR/R/load_fb.R | 54 worldfootballR-0.5.7/worldfootballR/R/load_understat.R |only worldfootballR-0.5.7/worldfootballR/R/player_transfer_history.R | 2 worldfootballR-0.5.7/worldfootballR/README.md | 17 worldfootballR-0.5.7/worldfootballR/man/fotmob_get_season_stats.Rd | 2 worldfootballR-0.5.7/worldfootballR/man/load_match_comp_results.Rd |only worldfootballR-0.5.7/worldfootballR/man/load_understat_league_shots.Rd |only worldfootballR-0.5.7/worldfootballR/tests/testthat/test-fbref.R | 605 +++++----- worldfootballR-0.5.7/worldfootballR/tests/testthat/test-fotmob.R | 58 worldfootballR-0.5.7/worldfootballR/tests/testthat/test-load.R |only worldfootballR-0.5.7/worldfootballR/tests/testthat/test-transfermarkt.R | 2 18 files changed, 567 insertions(+), 355 deletions(-)
More information about worldfootballR at CRAN
Permanent link
Title: 'Toggl.com' Api for 'Rstudio'
Description: Use the <https://toggl.com> time tracker api through R.
Author: Vincent Guyader [aut, cre],
ThinkR [cph, fnd]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between togglr versions 0.1.33 dated 2018-08-13 and 0.1.99 dated 2022-07-11
togglr-0.1.33/togglr/R/get_time_entries.R |only togglr-0.1.99/togglr/DESCRIPTION | 22 togglr-0.1.99/togglr/MD5 | 80 +-- togglr-0.1.99/togglr/NAMESPACE | 159 +++--- togglr-0.1.99/togglr/NEWS.md |only togglr-0.1.99/togglr/R/Get_time_entries.R |only togglr-0.1.99/togglr/R/client.R | 210 ++++---- togglr-0.1.99/togglr/R/doc_package.R | 18 togglr-0.1.99/togglr/R/get.R | 2 togglr-0.1.99/togglr/R/get_dashboard.R | 15 togglr-0.1.99/togglr/R/get_detailled_report.R |only togglr-0.1.99/togglr/R/get_project.R | 187 ++++--- togglr-0.1.99/togglr/R/get_summary_report.R |only togglr-0.1.99/togglr/R/get_weekly_report.R |only togglr-0.1.99/togglr/R/get_workspace.R | 11 togglr-0.1.99/togglr/R/get_workspace_users.R |only togglr-0.1.99/togglr/R/globals.R |only togglr-0.1.99/togglr/R/onAttach.R | 48 -- togglr-0.1.99/togglr/R/open_toggl.R | 8 togglr-0.1.99/togglr/R/put.R | 402 ++++++++--------- togglr-0.1.99/togglr/R/put_project.R | 127 +++-- togglr-0.1.99/togglr/R/put_update_time_entries.R |only togglr-0.1.99/togglr/R/simplify.R | 10 togglr-0.1.99/togglr/R/tools.R | 190 ++++---- togglr-0.1.99/togglr/README.md | 61 +- togglr-0.1.99/togglr/build/vignette.rds |binary togglr-0.1.99/togglr/inst/doc/togglr.R | 22 togglr-0.1.99/togglr/inst/doc/togglr.html | 396 ++++++++++++++-- togglr-0.1.99/togglr/man/correct_date.Rd | 3 togglr-0.1.99/togglr/man/create_client.Rd | 6 togglr-0.1.99/togglr/man/get_all_client_names.Rd | 9 togglr-0.1.99/togglr/man/get_all_project_names.Rd | 9 togglr-0.1.99/togglr/man/get_dashboard.Rd | 13 togglr-0.1.99/togglr/man/get_detailled_report_paged.Rd |only togglr-0.1.99/togglr/man/get_project_id.Rd | 13 togglr-0.1.99/togglr/man/get_project_id_and_name.Rd | 6 togglr-0.1.99/togglr/man/get_project_task_detail.Rd | 12 togglr-0.1.99/togglr/man/get_project_total.Rd | 9 togglr-0.1.99/togglr/man/get_summary_report.Rd |only togglr-0.1.99/togglr/man/get_time_entries.Rd | 9 togglr-0.1.99/togglr/man/get_weekly_report.Rd |only togglr-0.1.99/togglr/man/get_workspace_users.Rd |only togglr-0.1.99/togglr/man/simplify.Rd |only togglr-0.1.99/togglr/man/to_humain.Rd |only togglr-0.1.99/togglr/man/toggl_create.Rd | 28 + togglr-0.1.99/togglr/man/toggl_create_project.Rd | 16 togglr-0.1.99/togglr/man/toggl_start.Rd | 13 togglr-0.1.99/togglr/man/toggl_update_entries.Rd |only togglr-0.1.99/togglr/man/togglr-package.Rd | 2 49 files changed, 1275 insertions(+), 841 deletions(-)
Title: Judd, McClelland, & Ryan Formatting for ANOVA Output
Description: Produces ANOVA tables in the format used by Judd, McClelland,
and Ryan (2017, ISBN: 978-1138819832) in their introductory textbook,
Data Analysis. This includes proportional reduction in error and
formatting to improve ease the transition between the book and R.
Author: Adam Blake [cre, aut] ,
Jeff Chrabaszcz [aut],
Ji Son [aut] ,
Jim Stigler [aut]
Maintainer: Adam Blake <adamblake@g.ucla.edu>
Diff between supernova versions 2.5.1 dated 2022-01-27 and 2.5.3 dated 2022-07-11
supernova-2.5.1/supernova/R/value_extraction.R |only supernova-2.5.1/supernova/man/df.Rd |only supernova-2.5.1/supernova/man/estimate_extraction.Rd |only supernova-2.5.1/supernova/tests/testthat/_snaps/pairwise/multiple-plots-raceethnic.svg |only supernova-2.5.1/supernova/tests/testthat/_snaps/pairwise/multiple-plots-sex-raceethnic.svg |only supernova-2.5.1/supernova/tests/testthat/_snaps/pairwise/multiple-plots-sex.svg |only supernova-2.5.1/supernova/tests/testthat/_snaps/value_extraction.md |only supernova-2.5.1/supernova/tests/testthat/cache |only supernova-2.5.1/supernova/tests/testthat/test-style.R |only supernova-2.5.1/supernova/tests/testthat/test-value_extraction.r |only supernova-2.5.3/supernova/DESCRIPTION | 60 +-- supernova-2.5.3/supernova/MD5 | 65 +--- supernova-2.5.3/supernova/NAMESPACE | 14 supernova-2.5.3/supernova/NEWS.md | 14 supernova-2.5.3/supernova/R/generate_models.R | 12 supernova-2.5.3/supernova/R/number.R | 4 supernova-2.5.3/supernova/R/pairwise.R | 42 +- supernova-2.5.3/supernova/R/supernova-package.R | 4 supernova-2.5.3/supernova/R/supernova.R | 83 ++--- supernova-2.5.3/supernova/R/utils.R | 5 supernova-2.5.3/supernova/README.md | 153 ++++------ supernova-2.5.3/supernova/man/figures/README-unnamed-chunk-21-1.png |only supernova-2.5.3/supernova/man/figures/README-unnamed-chunk-23-1.png |only supernova-2.5.3/supernova/man/generate_models.Rd | 12 supernova-2.5.3/supernova/man/pairwise.Rd | 39 +- supernova-2.5.3/supernova/man/supernova.Rd | 11 supernova-2.5.3/supernova/man/update_in_env.Rd | 3 supernova-2.5.3/supernova/tests/testthat/_snaps/pairwise/bonferroni-one-variable.svg | 112 ++----- supernova-2.5.3/supernova/tests/testthat/_snaps/pairwise/multiple-plots-term-factor-am.svg |only supernova-2.5.3/supernova/tests/testthat/_snaps/pairwise/multiple-plots-term-factor-cyl-factor-am.svg |only supernova-2.5.3/supernova/tests/testthat/_snaps/pairwise/multiple-plots-term-factor-cyl.svg |only supernova-2.5.3/supernova/tests/testthat/_snaps/pairwise/t-test-one-variable.svg | 110 ++----- supernova-2.5.3/supernova/tests/testthat/_snaps/pairwise/tukey-one-variable.svg | 110 ++----- supernova-2.5.3/supernova/tests/testthat/data/jmr_ex11.1.Rds |binary supernova-2.5.3/supernova/tests/testthat/data/jmr_ex11.17.Rds |binary supernova-2.5.3/supernova/tests/testthat/data/jmr_ex11.22.Rds |binary supernova-2.5.3/supernova/tests/testthat/data/jmr_ex11.9.Rds |binary supernova-2.5.3/supernova/tests/testthat/test-generate_models.R | 5 supernova-2.5.3/supernova/tests/testthat/test-pairwise.R | 42 +- supernova-2.5.3/supernova/tests/testthat/test-supernova.r | 61 ++- 40 files changed, 399 insertions(+), 562 deletions(-)
Title: Psychometric Meta-Analysis Toolkit
Description: Tools for computing bare-bones and psychometric meta-analyses and for generating psychometric data for use in meta-analysis simulations. Supports bare-bones, individual-correction, and artifact-distribution methods for meta-analyzing correlations and d values. Includes tools for converting effect sizes, computing sporadic artifact corrections, reshaping meta-analytic databases, computing multivariate corrections for range variation, and more. Bugs can be reported to <https://github.com/psychmeta/psychmeta/issues> or <issues@psychmeta.com>.
Author: Jeffrey A. Dahlke [aut, cre],
Brenton M. Wiernik [aut],
Wesley Gardiner [ctb] ,
Michael T. Brannick [ctb] ,
Jack Kostal [ctb] ,
Sean Potter [ctb] ,
John Sakaluk [ctb] ,
Yuejia Teng [ctb]
Maintainer: Jeffrey A. Dahlke <jdahlke@humrro.org>
Diff between psychmeta versions 2.6.3 dated 2022-04-14 and 2.6.4 dated 2022-07-11
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 5 +++++ R/create_ad_list.R | 4 ++-- R/estimate_var_rho_tsa.R | 2 +- build/partial.rdb |binary build/psychmeta.pdf |binary inst/doc/ma_r.html | 4 ++-- man/estimate_var_rho_tsa.Rd | 2 +- 9 files changed, 23 insertions(+), 18 deletions(-)
Title: Multiomics Data Integration
Description: Provides functions to do 'O2PLS-DA' analysis for multiple omics data integration.
The algorithm came from "O2-PLS, a two-block (X±Y) latent variable regression (LVR) method with an integral OSC filter"
which published by Johan Trygg and Svante Wold at 2003 <doi:10.1002/cem.775>.
'O2PLS' is a bidirectional multivariate regression method that aims to separate the covariance between
two data sets (it was recently extended to multiple data sets) (Löfstedt and Trygg, 2011 <doi:10.1002/cem.1388>; Löfstedt et al., 2012 <doi:10.1016/j.aca.2013.06.026>)
from the systematic sources of variance being specific for each data set separately.
Author: Kai Guo [aut, cre],
Junguk Hur [aut],
Eva Feldman [aut]
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between o2plsda versions 0.0.16 dated 2022-07-08 and 0.0.17 dated 2022-07-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/misc.R | 18 ++++++++++++++++-- R/o2pls.R | 24 ++++++++++++++---------- R/o2plscv.R | 6 ++++-- 5 files changed, 41 insertions(+), 21 deletions(-)
Title: Estimation Methods for Markets in Equilibrium and Disequilibrium
Description: Provides estimation methods for markets in equilibrium and
disequilibrium. Supports the estimation of an equilibrium and
four disequilibrium models with both correlated and independent shocks.
Also provides post-estimation analysis tools, such as aggregation,
marginal effect, and shortage calculations. The estimation methods are
based on full information maximum likelihood techniques given in
Maddala and Nelson (1974) <doi:10.2307/1914215>. They are implemented
using the analytic derivative expressions calculated in
Karapanagiotis (2020) <doi:10.2139/ssrn.3525622>. Standard
errors can be estimated by adjusting for heteroscedasticity or clustering.
The equilibrium estimation constitutes a case of a system of linear,
simultaneous equations. Instead, the disequilibrium models replace the
market-clearing condition with a non-linear,
short-side rule and allow for different specifications of price dynamics.
Author: Pantelis Karapanagiotis [aut, cre]
Maintainer: Pantelis Karapanagiotis <pikappa.devel@gmail.com>
Diff between markets versions 1.0.6 dated 2022-07-05 and 1.1.0 dated 2022-07-11
markets-1.0.6/markets/man/maximize_log_likelihood.Rd |only markets-1.1.0/markets/DESCRIPTION | 8 markets-1.1.0/markets/MD5 | 106 - markets-1.1.0/markets/NAMESPACE | 15 markets-1.1.0/markets/NEWS.md | 29 markets-1.1.0/markets/R/equation_base.R | 7 markets-1.1.0/markets/R/equilibrium_model.R | 15 markets-1.1.0/markets/R/market_fit.R | 381 ++++-- markets-1.1.0/markets/R/market_model.R | 368 +++-- markets-1.1.0/markets/R/model_logger.R | 16 markets-1.1.0/markets/R/model_simulation.R | 24 markets-1.1.0/markets/R/system_base.R | 2 markets-1.1.0/markets/README.md | 32 markets-1.1.0/markets/configure | 18 markets-1.1.0/markets/configure.ac | 2 markets-1.1.0/markets/inst/doc/basic_usage.R | 18 markets-1.1.0/markets/inst/doc/basic_usage.Rmd | 18 markets-1.1.0/markets/inst/doc/basic_usage.html | 617 ++++------ markets-1.1.0/markets/inst/doc/market_clearing_assessment.R | 1 markets-1.1.0/markets/inst/doc/market_clearing_assessment.Rmd | 1 markets-1.1.0/markets/inst/doc/market_clearing_assessment.html | 546 ++++---- markets-1.1.0/markets/inst/doc/markets.pdf |binary markets-1.1.0/markets/inst/doc/model_details.R | 14 markets-1.1.0/markets/inst/doc/model_details.Rmd | 14 markets-1.1.0/markets/inst/doc/model_details.html | 40 markets-1.1.0/markets/man/coef.Rd | 11 markets-1.1.0/markets/man/estimate.Rd | 75 + markets-1.1.0/markets/man/figures/design.png |binary markets-1.1.0/markets/man/formula-market_model-method.Rd | 16 markets-1.1.0/markets/man/logLik.Rd | 4 markets-1.1.0/markets/man/marginal_effects.Rd | 14 markets-1.1.0/markets/man/market_aggregation.Rd | 10 markets-1.1.0/markets/man/market_fits.Rd | 17 markets-1.1.0/markets/man/market_quantities.Rd | 7 markets-1.1.0/markets/man/market_simulation.Rd | 25 markets-1.1.0/markets/man/model_description.Rd | 37 markets-1.1.0/markets/man/model_likelihoods.Rd | 39 markets-1.1.0/markets/man/ncoef.Rd |only markets-1.1.0/markets/man/nobs.Rd | 22 markets-1.1.0/markets/man/plot.Rd | 15 markets-1.1.0/markets/man/shortage_analysis.Rd | 12 markets-1.1.0/markets/man/show.Rd | 27 markets-1.1.0/markets/man/single_call_estimation.Rd | 70 + markets-1.1.0/markets/man/variable_names.Rd | 1 markets-1.1.0/markets/man/vcov.Rd | 2 markets-1.1.0/markets/src/equilibrium.cpp | 37 markets-1.1.0/markets/tests/testthat/test-basic.R | 2 markets-1.1.0/markets/tests/testthat/test-deterministic_adjustment.R | 2 markets-1.1.0/markets/tests/testthat/test-directional.R | 2 markets-1.1.0/markets/tests/testthat/test-equilibrium.R | 22 markets-1.1.0/markets/tests/testthat/test-stochastic_adjustment.R | 2 markets-1.1.0/markets/vignettes/basic_usage.Rmd | 18 markets-1.1.0/markets/vignettes/market_clearing_assessment.Rmd | 1 markets-1.1.0/markets/vignettes/markets.pdf |binary markets-1.1.0/markets/vignettes/model_details.Rmd | 14 55 files changed, 1592 insertions(+), 1204 deletions(-)
Title: Intensity Estimation on Geometric Networks with Penalized
Splines
Description: Fitting the intensity function of point
processes on geometric networks. The method makes use of generalized
additive models (GAM). The method is described in Marc Schneble, Göran Kauermann.
"Intensity estimation on geometric networks with penalized splines." The
Annals of Applied Statistics, 16(2) 843-865 June 2022.
<doi:10.1214/21-AOAS1522>.
A new class for representing linear networks as
geometric networks is the core of the package.
Author: Marc Schneble [aut, cre]
Maintainer: Marc Schneble <marc.schneble@stat.uni-muenchen.de>
Diff between geonet versions 0.6.0 dated 2021-08-06 and 0.7.3 dated 2022-07-11
DESCRIPTION | 17 +-- LICENSE | 4 MD5 | 96 +++++++++--------- NAMESPACE | 131 +++++++++++-------------- NEWS.md | 19 ++- R/as.R | 10 + R/data.R | 42 ++++---- R/fitting.R | 5 R/geonet.R | 18 +-- R/matrices.R | 4 R/ml.R | 11 -- R/network.R | 10 - R/plot.R | 3 R/print.R | 7 - R/simulation.R | 6 - R/summary.R | 228 ++++++++++++++++++++++----------------------- R/utils.R | 1 man/as.linnet.gn.Rd | 76 +++++++-------- man/as_gn.Rd | 98 +++++++++---------- man/as_gnpp.Rd | 80 +++++++-------- man/as_lpp.Rd | 78 +++++++-------- man/bin_data.Rd | 66 ++++++------- man/bspline_design.Rd | 52 +++++----- man/bspline_design_plot.Rd | 46 ++++----- man/confidence_band.Rd | 60 +++++------ man/delta_h_global.Rd | 92 +++++++++--------- man/fit_poisson_model.Rd | 92 +++++++++--------- man/incidence.Rd | 50 ++++----- man/intensity_kernel.Rd | 54 +++++----- man/intensity_pspline.Rd | 182 +++++++++++++++++------------------ man/internal.Rd | 66 ++++++------- man/montgomery.Rd | 42 ++++---- man/network_ISE.Rd | 40 +++---- man/network_bins.Rd | 48 ++++----- man/network_integral.Rd | 34 +++--- man/network_intensity.Rd | 60 +++++------ man/network_knots.Rd | 50 ++++----- man/network_location.Rd | 44 ++++---- man/network_penalty.Rd | 52 +++++----- man/plot.gn.Rd | 208 ++++++++++++++++++++--------------------- man/print.gn.Rd | 54 +++++----- man/print.summary.gn.Rd | 52 +++++----- man/rgnpp.Rd | 54 +++++----- man/runifgn.Rd | 48 ++++----- man/scoring.Rd | 116 +++++++++++----------- man/small_gn.Rd | 38 +++---- man/summary.gn.Rd | 56 +++++------ man/summary.gnppfit.Rd | 48 ++++----- tests/testthat/testas.R | 2 49 files changed, 1369 insertions(+), 1381 deletions(-)
Title: Tools to Support Relative Importance Analysis
Description: Methods to apply decomposition-based relative importance
analysis for R functions. This package supports the application of
decomposition methods by providing 'lapply'- or 'Map'-like meta-functions that
compute dominance analysis (Azen, R., & Budescu, D. V. (2003)
<doi:10.1037/1082-989X.8.2.129>; Grömping, U. (2007)
<doi:10.1198/000313007X188252>) or Shapley value regression
(Lipovetsky, S., & Conklin, M. (2001) <doi:10.1002/asmb.446>)
based on the values returned from other functions.
Author: Joseph Luchman [aut, cre]
Maintainer: Joseph Luchman <jluchman@gmail.com>
Diff between domir versions 0.3.2 dated 2022-05-10 and 1.0.0 dated 2022-07-11
DESCRIPTION | 35 - MD5 | 36 - NAMESPACE | 7 NEWS.md | 27 R/domin.r | 578 +++++++++++---------- R/dominance_internals.r |only R/domir-package.r | 56 +- R/domir.r |only README.md | 919 ++++++++++++---------------------- build/vignette.rds |binary inst/doc/domir_basics.R | 8 inst/doc/domir_basics.Rmd | 12 inst/doc/domir_basics.html | 82 +-- man/domin.Rd | 6 man/dominance_scalar.Rd |only man/domir-package.Rd | 46 + man/domir.Rd |only man/print.domir.Rd |only man/summary.domir.Rd |only tests/testthat/test-Dominance_Stats.r | 38 + tests/testthat/test-Features.r | 117 +++- vignettes/domir_basics.Rmd | 12 22 files changed, 1000 insertions(+), 979 deletions(-)
Title: Computations over Distributed Data without Aggregation
Description: Implementing algorithms and fitting models when sites (possibly remote) share
computation summaries rather than actual data over HTTP with a master R process (using
'opencpu', for example). A stratified Cox model and a singular value decomposition are
provided. The former makes direct use of code from the R 'survival' package. (That is,
the underlying Cox model code is derived from that in the R 'survival' package.)
Sites may provide data via several means: CSV files, Redcap API, etc. An extensible
design allows for new methods to be added in the future and includes facilities
for local prototyping and testing. Web applications are provided (via 'shiny') for
the implemented methods to help in designing and deploying the computations.
Author: Balasubramanian Narasimhan [aut, cre],
Marina Bendersky [aut],
Sam Gross [aut],
Terry M. Therneau [ctb],
Thomas Lumley [ctb]
Maintainer: Balasubramanian Narasimhan <naras@stat.Stanford.EDU>
Diff between distcomp versions 1.3-1 dated 2021-05-08 and 1.3-2 dated 2022-07-11
DESCRIPTION | 6 - MD5 | 12 +-- build/vignette.rds |binary inst/doc/prototyping.html | 110 ++++++++++++++++++++++------------ src/coxmart.c | 4 - src/survS.h | 4 - src/survproto.h | 148 +++++++++++++++++++++++----------------------- 7 files changed, 158 insertions(+), 126 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-07 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-18 0.1.3
2018-08-01 0.1.2
2018-04-08 0.1.1
2016-07-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-02 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-16 0.3.1
2021-09-01 0.3.0
2021-03-08 0.2.1
2021-03-06 0.2.0
2021-02-17 0.1.1
2021-02-16 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-25 0.1.0