Title: Collection of Convenient Functions for Common Statistical
Computations
Description: Collection of convenient functions for common statistical computations,
which are not directly provided by R's base or stats packages.
This package aims at providing, first, shortcuts for statistical measures,
which otherwise could only be calculated with additional effort
(like Cramer's V, Phi, or effect size statistics like Eta or Omega squared),
or for which currently no functions available. Second, another focus
lies on weighted variants of common statistical measures and tests
like weighted standard error, mean, t-test, correlation, and more.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjstats versions 0.17.5 dated 2019-06-04 and 0.17.6 dated 2019-09-08
sjstats-0.17.5/sjstats/R/check_model_assumptions.R |only sjstats-0.17.5/sjstats/R/overdisp.R |only sjstats-0.17.5/sjstats/R/samplesize_lme.R |only sjstats-0.17.5/sjstats/man/check_assumptions.Rd |only sjstats-0.17.5/sjstats/man/deff.Rd |only sjstats-0.17.5/sjstats/man/smpsize_lmm.Rd |only sjstats-0.17.6/sjstats/DESCRIPTION | 38 sjstats-0.17.6/sjstats/MD5 | 101 +- sjstats-0.17.6/sjstats/NAMESPACE | 36 sjstats-0.17.6/sjstats/NEWS.md | 224 ---- sjstats-0.17.6/sjstats/R/Deprecated.R |only sjstats-0.17.6/sjstats/R/S3-methods.R | 600 +----------- sjstats-0.17.6/sjstats/R/anova_stats.R |only sjstats-0.17.6/sjstats/R/cohens_f.R |only sjstats-0.17.6/sjstats/R/cramer.R |only sjstats-0.17.6/sjstats/R/design_effect.R |only sjstats-0.17.6/sjstats/R/epsilon_sq.R |only sjstats-0.17.6/sjstats/R/eta_sq.R | 303 ------ sjstats-0.17.6/sjstats/R/helpfunctions.R | 14 sjstats-0.17.6/sjstats/R/mediation.R | 12 sjstats-0.17.6/sjstats/R/odds_to_rr.R | 85 + sjstats-0.17.6/sjstats/R/omega_sq.R |only sjstats-0.17.6/sjstats/R/phi.R | 52 - sjstats-0.17.6/sjstats/R/re-exports.R | 16 sjstats-0.17.6/sjstats/R/samplesize_mixed.R |only sjstats-0.17.6/sjstats/R/se_ybar.R |only sjstats-0.17.6/sjstats/R/svy_median.R |only sjstats-0.17.6/sjstats/R/svyglmzip.R |only sjstats-0.17.6/sjstats/R/tidy_stan.R | 545 +--------- sjstats-0.17.6/sjstats/R/weight.R | 265 ----- sjstats-0.17.6/sjstats/R/wtd_cor.R |only sjstats-0.17.6/sjstats/R/wtd_mean.R |only sjstats-0.17.6/sjstats/R/wtd_median.R |only sjstats-0.17.6/sjstats/R/wtd_mwu.R |only sjstats-0.17.6/sjstats/R/wtd_sd.R |only sjstats-0.17.6/sjstats/R/wtd_se.R |only sjstats-0.17.6/sjstats/R/wtd_ttest.R | 159 --- sjstats-0.17.6/sjstats/R/wtd_variance.R |only sjstats-0.17.6/sjstats/R/xtab_statistics.R | 10 sjstats-0.17.6/sjstats/README.md | 32 sjstats-0.17.6/sjstats/build/partial.rdb |binary sjstats-0.17.6/sjstats/build/vignette.rds |binary sjstats-0.17.6/sjstats/inst/doc/anova-statistics.R | 6 sjstats-0.17.6/sjstats/inst/doc/anova-statistics.Rmd | 15 sjstats-0.17.6/sjstats/inst/doc/anova-statistics.html | 86 + sjstats-0.17.6/sjstats/inst/doc/bayesian-statistics.R | 10 sjstats-0.17.6/sjstats/inst/doc/bayesian-statistics.Rmd | 25 sjstats-0.17.6/sjstats/inst/doc/bayesian-statistics.html | 347 ++++-- sjstats-0.17.6/sjstats/inst/doc/mixedmodels-statistics.R | 8 sjstats-0.17.6/sjstats/inst/doc/mixedmodels-statistics.Rmd | 18 sjstats-0.17.6/sjstats/inst/doc/mixedmodels-statistics.html | 28 sjstats-0.17.6/sjstats/man/design_effect.Rd |only sjstats-0.17.6/sjstats/man/eta_sq.Rd | 27 sjstats-0.17.6/sjstats/man/odds_to_rr.Rd | 36 sjstats-0.17.6/sjstats/man/overdisp.Rd | 32 sjstats-0.17.6/sjstats/man/reexports.Rd | 8 sjstats-0.17.6/sjstats/man/samplesize_mixed.Rd |only sjstats-0.17.6/sjstats/man/se_ybar.Rd | 2 sjstats-0.17.6/sjstats/man/svyglm.zip.Rd |only sjstats-0.17.6/sjstats/man/tidy_stan.Rd | 30 sjstats-0.17.6/sjstats/man/wtd_sd.Rd | 83 - sjstats-0.17.6/sjstats/man/xtab_statistics.Rd | 30 sjstats-0.17.6/sjstats/vignettes/anova-statistics.Rmd | 15 sjstats-0.17.6/sjstats/vignettes/bayesian-statistics.Rmd | 25 sjstats-0.17.6/sjstats/vignettes/mixedmodels-statistics.Rmd | 18 65 files changed, 948 insertions(+), 2393 deletions(-)
Title: Nonparametric and Stochastic Efficiency and Productivity
Analysis
Description: Provides a variety of tools for nonparametric and parametric efficiency measurement.
Author: Oleg Badunenko [aut, cre],
Yaryna Kolomiytseva [aut],
Pavlo Mozharovskyi [aut]
Maintainer: Oleg Badunenko <oleg.badunenko@port.ac.uk>
Diff between npsf versions 0.5.1 dated 2019-04-12 and 0.5.2 dated 2019-09-08
ChangeLog | 7 +++ DESCRIPTION | 8 ++-- MD5 | 10 ++--- R/npsf-internal.R | 8 ++-- R/truncreg.R | 97 ++++++++++++++++++++++++++++++++++++++++++------------ man/sf.Rd | 14 +++++++ 6 files changed, 108 insertions(+), 36 deletions(-)
Title: Provides Easy Downloading Capabilities for the UK Parliament API
Description: Provides functions to download data from the
<http://www.data.parliament.uk/> APIs. Because of the structure of the API,
there is a named function for each type of available data for ease of use,
as well as some functions designed to retrieve specific pieces of commonly
used data. Functions for each new API will be added as and when they become
available.
Author: Evan Odell [aut, cre] (<https://orcid.org/0000-0003-1845-808X>)
Maintainer: Evan Odell <evanodell91@gmail.com>
Diff between hansard versions 0.7.0 dated 2019-05-21 and 0.7.1 dated 2019-09-08
DESCRIPTION | 6 - MD5 | 16 ++--- NEWS.md | 5 + README.md | 60 +++++++++++-------- build/vignette.rds |binary inst/doc/introduction.R | 14 ++-- inst/doc/introduction.Rmd | 8 -- inst/doc/introduction.html | 136 +++++++++++++-------------------------------- vignettes/introduction.Rmd | 8 -- 9 files changed, 101 insertions(+), 152 deletions(-)
Title: Install Packages from Snapshots on the Checkpoint Server for
Reproducibility
Description: The goal of checkpoint is to solve the problem of package
reproducibility in R. Specifically, checkpoint allows you to install packages
as they existed on CRAN on a specific snapshot date as if you had a CRAN time
machine. To achieve reproducibility, the checkpoint() function installs the
packages required or called by your project and scripts to a local library
exactly as they existed at the specified point in time. Only those packages
are available to your project, thereby avoiding any package updates that came
later and may have altered your results. In this way, anyone using checkpoint's
checkpoint() can ensure the reproducibility of your scripts or projects at any
time. To create the snapshot archives, once a day (at midnight UTC) Microsoft
refreshes the Austria CRAN mirror on the "Microsoft R Archived Network"
server (<https://mran.microsoft.com/>). Immediately after completion
of the rsync mirror process, the process takes a snapshot, thus creating the
archive. Snapshot archives exist starting from 2014-09-17.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi@microsoft.com>
Diff between checkpoint versions 0.4.6 dated 2019-07-27 and 0.4.7 dated 2019-09-08
checkpoint-0.4.6/checkpoint/NEWS |only checkpoint-0.4.7/checkpoint/DESCRIPTION | 19 checkpoint-0.4.7/checkpoint/MD5 | 53 - checkpoint-0.4.7/checkpoint/NEWS.md |only checkpoint-0.4.7/checkpoint/R/checkpoint.R | 8 checkpoint-0.4.7/checkpoint/R/checkpoint_internals.R | 38 checkpoint-0.4.7/checkpoint/R/mranUrl.R | 3 checkpoint-0.4.7/checkpoint/README.md |only checkpoint-0.4.7/checkpoint/inst/doc/checkpoint.html | 417 +++++++-- checkpoint-0.4.7/checkpoint/inst/doc/managing-checkpoint-archives.html | 425 +++++++--- checkpoint-0.4.7/checkpoint/inst/examples/example_mranurl.R | 4 checkpoint-0.4.7/checkpoint/man/checkpoint.Rd | 1 checkpoint-0.4.7/checkpoint/man/checkpointArchives.Rd | 1 checkpoint-0.4.7/checkpoint/man/checkpointRemove.Rd | 1 checkpoint-0.4.7/checkpoint/man/getAccessDate.Rd | 1 checkpoint-0.4.7/checkpoint/man/getValidSnapshots.Rd | 1 checkpoint-0.4.7/checkpoint/man/mranUrl.Rd | 5 checkpoint-0.4.7/checkpoint/man/setSnapshot.Rd | 1 checkpoint-0.4.7/checkpoint/man/unCheckpoint.Rd | 7 checkpoint-0.4.7/checkpoint/tests/testthat/test-0-is-404.R | 9 checkpoint-0.4.7/checkpoint/tests/testthat/test-0-snapshots.R | 56 - checkpoint-0.4.7/checkpoint/tests/testthat/test-1-scan.R | 2 checkpoint-0.4.7/checkpoint/tests/testthat/test-2-snapshot-dates.R | 16 checkpoint-0.4.7/checkpoint/tests/testthat/test-3-checkpoint.R | 44 - checkpoint-0.4.7/checkpoint/tests/testthat/test-4-mranUrl.R | 2 checkpoint-0.4.7/checkpoint/tests/testthat/test-5-search-detach.R | 2 checkpoint-0.4.7/checkpoint/tests/testthat/test-6-accessdate.R | 2 checkpoint-0.4.7/checkpoint/tests/testthat/test-7-anyRfiles.R | 1 checkpoint-0.4.7/checkpoint/tests/testthat/test-8-authoriseFileSystemUse.R | 2 29 files changed, 820 insertions(+), 301 deletions(-)
Title: Authentication Services for Azure Active Directory
Description: Provides Azure Active Directory (AAD) authentication functionality for R users of Microsoft's 'Azure' cloud <https://azure.microsoft.com/>. Use this package to obtain 'OAuth' 2.0 tokens for services including Azure Resource Manager, Azure Storage and others. It supports both AAD v1.0 and v2.0, as well as multiple authentication methods, including device code and resource owner grant. Tokens are cached in a user-specific directory obtained using the 'rappdirs' package. The interface is based on the 'OAuth' framework in the 'httr' package, but customised and streamlined for Azure. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
httr development team [ctb] (Original OAuth listener code),
Scott Holden [ctb] (Advice on AAD authentication),
Chris Stone [ctb] (Advice on AAD authentication),
Microsoft [cph]
Maintainer: Hong Ooi <hongooi@microsoft.com>
Diff between AzureAuth versions 1.2.0 dated 2019-08-21 and 1.2.1 dated 2019-09-08
DESCRIPTION | 6 ++-- MD5 | 30 +++++++++++------------ NEWS.md | 5 +++ R/AzureAuth.R | 6 ++-- R/AzureToken.R | 7 +++-- R/flow_init.R | 4 +-- R/format.R | 2 - R/token.R | 43 +++++++++++++++++++++++++--------- R/utils.R | 6 ++++ README.md | 2 - inst/doc/token.Rmd | 23 ++++++++++++++++++ inst/doc/token.html | 18 ++++++++++++++ man/get_azure_token.Rd | 37 +++++++++++++++++++++++------ tests/testthat/test11_v1_token_misc.R | 12 +++++++++ tests/testthat/test21_v2_token_misc.R | 14 +++++++++++ vignettes/token.Rmd | 23 ++++++++++++++++++ 16 files changed, 193 insertions(+), 45 deletions(-)
Title: 'pinp' is not 'PNAS'
Description: A 'PNAS'-alike style for 'rmarkdown', derived from the
'Proceedings of the National Academy of Sciences of the United States
of America' ('PNAS', see <https://www.pnas.org>) 'LaTeX' style, and
adapted for use with 'markdown' and 'pandoc'.
Author: Dirk Eddelbuettel and James Balamuta
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between pinp versions 0.0.7 dated 2019-01-11 and 0.0.8 dated 2019-09-08
ChangeLog | 42 ++++ DESCRIPTION | 8 MD5 | 30 +-- R/pinp.R | 11 - README.md | 2 build/vignette.rds |binary cleanup | 7 inst/NEWS.Rd | 31 ++- inst/doc/pinp.Rmd | 9 inst/doc/pinp.pdf |binary inst/rmarkdown/templates/pdf/resources/template.tex | 2 inst/rmarkdown/templates/pdf/skeleton/pinp.cls | 198 ++++++++++++++------ inst/rmarkdown/templates/pdf/skeleton/skeleton.Rmd | 4 inst/rmarkdown/templates/pdf/skeleton/titlesec.sty |only inst/rmarkdown/templates/pdf/skeleton/ttlkeys.def |only man/pinp.Rd | 4 vignettes/pinp.Rmd | 9 17 files changed, 242 insertions(+), 115 deletions(-)
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors as described in van Hees and colleagues (2014) <doi: 10.1152/japplphysiol.00421.2014> and (2015) <doi: 10.1371/journal.pone.0142533>. The package has been developed and tested for binary data from 'GENEActiv' <https://www.activinsights.com/> and GENEA devices (not for sale), .csv-export data from 'Actigraph' <http://actigraphcorp.com> devices, and .cwa and .wav-format data from 'Axivity' <https://axivity.com/product/ax3>. These devices are currently widely used in research on human daily physical activity. Further, the package can handle accelerometer data file from any other sensor brand providing that the data is stored in csv format and has either no header or a two column header.
Author: Vincent T van Hees [aut, cre],
Zhou Fang [ctb],
Jing Hua Zhao [ctb],
Joe Heywood [ctb],
Evgeny Mirkes [ctb],
Severine Sabia [ctb],
Joan Capdevila Pujol [ctb],
Jairo H Migueles [ctb]
Maintainer: Vincent T van Hees <vincentvanhees@gmail.com>
Diff between GGIR versions 1.10-1 dated 2019-08-23 and 1.10-3 dated 2019-09-08
DESCRIPTION | 14 +- MD5 | 69 ++++++------ NAMESPACE | 5 R/g.analyse.avday.R | 7 - R/g.analyse.perfile.R | 2 R/g.calibrate.R | 155 ++++++++++++++++++++++----- R/g.dotorcomma.R | 25 +++- R/g.extractheadervars.R | 15 ++ R/g.getidfromheaderobject.R | 6 + R/g.getmeta.R | 198 ++++++++++++++++++++++++++--------- R/g.getstarttime.R | 7 + R/g.inspectfile.R | 119 ++++++++++++++++----- R/g.metric.R | 2 R/g.part1.R | 143 +++++++++++++++++++++---- R/g.part4.R | 32 +++-- R/g.readaccfile.R | 83 +++++++++++++- R/g.report.part2.R | 22 ++- R/g.shell.GGIR.R | 95 ++++++++++++---- R/read.myacc.csv.R |only R/updateBlocksize.R | 10 + inst/NEWS.Rd | 11 + inst/doc/GGIR.Rmd | 30 +++-- inst/doc/GGIR.html | 25 ++-- man/GGIR-package.Rd | 4 man/g.calibrate.Rd | 6 - man/g.dotorcomma.Rd | 6 - man/g.getstarttime.Rd | 3 man/g.inspectfile.Rd | 69 ++++++------ man/g.part1.Rd | 40 +++---- man/g.part3.Rd | 22 +-- man/g.readaccfile.Rd | 7 - man/g.shell.GGIR.Rd | 2 man/g.sib.det.Rd | 13 +- man/read.myacc.csv.Rd |only tests/testthat/test_chainof5parts.R | 30 ++--- tests/testthat/test_read.myacc.csv.R |only vignettes/GGIR.Rmd | 30 +++-- 37 files changed, 960 insertions(+), 347 deletions(-)
Title: Exploratory Data Analysis and Data Preparation Tool-Box
Description: Around 10% of almost any predictive modeling project is spent in predictive modeling, 'funModeling' and the book Data Science Live Book (<https://livebook.datascienceheroes.com/>) are intended to cover remaining 90%: data preparation, profiling, selecting best variables 'dataViz', assessing model performance and other functions.
Author: Pablo Casas [aut, cre]
Maintainer: Pablo Casas <pcasas.biz@gmail.com>
Diff between funModeling versions 1.9 dated 2019-08-26 and 1.9.2 dated 2019-09-08
DESCRIPTION | 12 - MD5 | 32 ++-- NAMESPACE | 2 R/common_lib.R | 9 - R/data_integrity.R | 34 +++- R/discretize.R | 6 R/exploratory_data_analysis.R | 30 +-- R/funModeling.R | 3 R/models_lib.R | 4 R/outliers.R | 8 - inst/doc/funModeling_quickstart.R | 16 ++ inst/doc/funModeling_quickstart.Rmd | 31 ++++ inst/doc/funModeling_quickstart.html | 268 ++++++++++++++++++++++++----------- man/data_integrity.Rd | 4 man/prep_outliers.Rd | 4 man/profiling_num.Rd | 6 vignettes/funModeling_quickstart.Rmd | 31 ++++ 17 files changed, 357 insertions(+), 143 deletions(-)
Title: Causal Modeling with Coincidence Analysis
Description: Provides comprehensive functionalities for causal modeling with Coincidence Analysis (CNA), which is a configurational comparative method of causal data analysis that was first introduced in Baumgartner (2009) <doi:10.1177/0049124109339369>, and generalized in Baumgartner & Ambuehl (2018) <doi:10.1017/psrm.2018.45>. CNA is related to Qualitative Comparative Analysis (QCA), but contrary to the latter, it is custom-built for uncovering causal structures with multiple outcomes and it builds causal models from the bottom up by gradually combining single factors to complex dependency structures until the requested thresholds of model fit are met. The new functionalities provided by this package version include functions for evaluating and benchmarking the correctness of CNA's output, a function determining whether a solution is an INUS model, a function bringing non-INUS expressions into INUS form, and a function for identifying cyclic models. The package vignette has been updated accordingly.
Author: Mathias Ambuehl [aut, cre, cph],
Michael Baumgartner [aut, cph],
Ruedi Epple [ctb],
Veli-Pekka Parkkinen [ctb],
Alrik Thiem [ctb]
Maintainer: Mathias Ambuehl <mathias.ambuehl@consultag.ch>
Diff between cna versions 2.2.0 dated 2019-04-13 and 2.2.1 dated 2019-09-08
DESCRIPTION | 8 MD5 | 56 - R/RcppExports.R | 64 - R/condition.r | 2 R/rreduce.R | 8 build/vignette.rds |binary inst/NEWS | 3 inst/doc/cna_vignette.Rnw | 2288 ++++++++++++++++++++++----------------------- inst/doc/cna_vignette.pdf |binary man/allCombs.Rd | 148 +- man/cna-package.Rd | 4 man/cna.Rd | 952 +++++++++--------- man/coherence.Rd | 88 - man/condTbl.Rd | 296 ++--- man/condition.Rd | 472 ++++----- man/cyclic.Rd | 200 +-- man/full.tt.Rd | 194 +-- man/is.inus.Rd | 180 +-- man/is.submodel.Rd | 168 +-- man/makeFuzzy.Rd | 122 +- man/minimalize.Rd | 160 +-- man/minimalizeCsf.Rd | 190 +-- man/randomConds.Rd | 366 +++---- man/redundant.Rd | 150 +- man/some.Rd | 140 +- man/truthTab.Rd | 348 +++--- man/tt2df.Rd | 98 - src/RcppExports.cpp | 206 ++-- vignettes/cna_vignette.Rnw | 2288 ++++++++++++++++++++++----------------------- 29 files changed, 4587 insertions(+), 4612 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-03 0.9.3
2017-04-26 0.9.2
2016-12-12 0.9.01
2016-08-12 0.9.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-11 0.90.92
2018-06-10 0.90.91
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-20 2.0
2014-07-16 1.3
2013-10-09 1.2
Title: Functions for Nonlinear Least Squares Solutions
Description: Provides tools for working with nonlinear least squares problems.
It is intended to eventually supersede the 'nls()' function in the R
distribution. For example, 'nls()' specifically does NOT deal with small
or zero residual problems as its Gauss-Newton method frequently stops with
'singular gradient' messages. 'nlsr' is based on the now-deprecated package
'nlmrt', and has refactored functions and R-language symbolic derivative
features.
Author: John C Nash [aut, cre],
Duncan Murdoch [aut]
Maintainer: John C Nash <nashjc@uottawa.ca>
Diff between nlsr versions 2018.1.28 dated 2018-01-31 and 2019.9.7 dated 2019-09-08
nlsr-2018.1.28/nlsr/inst/dev-files |only nlsr-2018.1.28/nlsr/inst/doc/150507ideas.txt |only nlsr-2018.1.28/nlsr/inst/doc/161231todo.txt |only nlsr-2018.1.28/nlsr/inst/doc/FixedParameters.html |only nlsr-2018.1.28/nlsr/inst/doc/model2rjfun.pdf |only nlsr-2018.1.28/nlsr/inst/doc/nlsr-derivs.html |only nlsr-2018.1.28/nlsr/inst/doc/nlsr-devdoc.html |only nlsr-2019.9.7/nlsr/DESCRIPTION | 10 - nlsr-2019.9.7/nlsr/MD5 | 73 +++----- nlsr-2019.9.7/nlsr/NAMESPACE | 2 nlsr-2019.9.7/nlsr/NEWS | 14 + nlsr-2019.9.7/nlsr/R/model2rjfun.R | 1 nlsr-2019.9.7/nlsr/R/nlfb.R | 9 - nlsr-2019.9.7/nlsr/R/nlsr-package.R | 27 ++- nlsr-2019.9.7/nlsr/R/nlxb.R | 5 nlsr-2019.9.7/nlsr/build/vignette.rds |binary nlsr-2019.9.7/nlsr/inst/doc/FixedParameters.R | 1 nlsr-2019.9.7/nlsr/inst/doc/FixedParameters.Rmd | 17 - nlsr-2019.9.7/nlsr/inst/doc/FixedParameters.pdf |only nlsr-2019.9.7/nlsr/inst/doc/nlsr-derivs.R | 21 +- nlsr-2019.9.7/nlsr/inst/doc/nlsr-derivs.Rmd | 39 +++- nlsr-2019.9.7/nlsr/inst/doc/nlsr-derivs.pdf |only nlsr-2019.9.7/nlsr/inst/doc/nlsr-devdoc.R | 89 ++++------ nlsr-2019.9.7/nlsr/inst/doc/nlsr-devdoc.Rmd | 190 +++++++++++++++------- nlsr-2019.9.7/nlsr/inst/doc/nlsr-devdoc.pdf |only nlsr-2019.9.7/nlsr/man/nlsr-package.Rd | 6 nlsr-2019.9.7/nlsr/man/predict.nlsr.Rd |only nlsr-2019.9.7/nlsr/vignettes/FixedParameters.Rmd | 17 - nlsr-2019.9.7/nlsr/vignettes/FixedParameters.html |only nlsr-2019.9.7/nlsr/vignettes/nlpd.bib | 66 ++++++- nlsr-2019.9.7/nlsr/vignettes/nlsr-derivs.Rmd | 39 +++- nlsr-2019.9.7/nlsr/vignettes/nlsr-derivs.html |only nlsr-2019.9.7/nlsr/vignettes/nlsr-devdoc.Rmd | 190 +++++++++++++++------- nlsr-2019.9.7/nlsr/vignettes/nlsr-devdoc.html |only 34 files changed, 533 insertions(+), 283 deletions(-)
Title: Post-Selection Inference for Nonlinear Variable Selection
Description: Different post-selection inference strategies for kernel
selection, as described in "kernelPSI: a Post-Selection Inference Framework
for Nonlinear Variable Selection", Slim et al., Proceedings of Machine
Learning Research, 2019, <http://proceedings.mlr.press/v97/slim19a/slim19a.pdf>. The strategies rest upon quadratic kernel
association scores to measure the association between a given kernel and an
outcome of interest. The inference step tests for the joint effect of the
selected kernels on the outcome. A fast constrained sampling algorithm is
proposed to derive empirical p-values for the test statistics.
Author: Lotfi Slim [aut, cre],
Clément Chatelain [ctb],
Chloé-Agathe Azencott [ctb],
Jean-Philippe Vert [ctb]
Maintainer: Lotfi Slim <lotfi.slim@mines-paristech.fr>
Diff between kernelPSI versions 1.0.0 dated 2019-06-24 and 1.1.0 dated 2019-09-08
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 5 +++++ inst/doc/kernelPSI.html | 10 +++++++--- src/hsic.cpp | 39 +++++++++++++++++++++++---------------- 5 files changed, 44 insertions(+), 28 deletions(-)
Title: Model-Free Functional Chi-Squared and Exact Tests
Description: Statistical hypothesis testing methods for
inferring model-free functional dependency using asymptotic
chi-squared or exact distributions. Functional test
statistics are asymmetric and functionally optimal, unique
from other related statistics. Tests in this package reveal
evidence for causality based on the
causality-by-functionality principle. They include
asymptotic functional chi-squared tests
('Zhang & Song' 2013) <arXiv:1311.2707> and an exact
functional test ('Zhong & Song' 2019)
<doi:10.1109/TCBB.2018.2809743>. The normalized functional
chi-squared test was used by Best Performer 'NMSUSongLab'
in HPN-DREAM (DREAM8) Breast Cancer Network Inference
Challenges ('Hill et al' 2016) <doi:10.1038/nmeth.3773>. A
function index ('Zhong & Song' in press) ('Kumar et al' 2018)
<doi:10.1109/BIBM.2018.8621502> derived from the
functional test statistic offers a new effect size measure
for the strength of functional dependency, a better
alternative to conditional entropy in many aspects. For
continuous data, these tests offer an advantage over
regression analysis when a parametric functional form
cannot be assumed; for categorical data, they provide a
novel means to assess directional dependency not possible
with symmetrical Pearson's chi-squared or Fisher's exact
tests.
Author: Yang Zhang [aut],
Hua Zhong [aut] (<https://orcid.org/0000-0003-1962-2603>),
Hien Nguyen [aut],
Ruby Sharma [aut],
Sajal Kumar [aut],
Joe Song [aut, cre] (<https://orcid.org/0000-0002-6883-6547>)
Maintainer: Joe Song <joemsong@cs.nmsu.edu>
Diff between FunChisq versions 2.4.5-3 dated 2018-12-06 and 2.4.8-1 dated 2019-09-08
FunChisq-2.4.5-3/FunChisq/src/ExactFunctionalTest.cpp |only FunChisq-2.4.5-3/FunChisq/src/ExactFunctionalTest.h |only FunChisq-2.4.8-1/FunChisq/DESCRIPTION | 64 +++--- FunChisq-2.4.8-1/FunChisq/MD5 | 66 +++--- FunChisq-2.4.8-1/FunChisq/NAMESPACE | 2 FunChisq-2.4.8-1/FunChisq/NEWS | 88 +++++++- FunChisq-2.4.8-1/FunChisq/R/FunChisq.R | 66 +++++- FunChisq-2.4.8-1/FunChisq/R/Interaction.R | 11 - FunChisq-2.4.8-1/FunChisq/R/RcppExports.R | 8 FunChisq-2.4.8-1/FunChisq/README.md |only FunChisq-2.4.8-1/FunChisq/build/vignette.rds |binary FunChisq-2.4.8-1/FunChisq/inst/CITATION | 32 ++- FunChisq-2.4.8-1/FunChisq/inst/doc/exact.fun.test.html | 31 ++ FunChisq-2.4.8-1/FunChisq/inst/doc/fun.chisq.test.Rmd | 8 FunChisq-2.4.8-1/FunChisq/inst/doc/fun.chisq.test.html | 13 - FunChisq-2.4.8-1/FunChisq/inst/doc/patterns.html | 47 +++- FunChisq-2.4.8-1/FunChisq/man/EFT.Rd |only FunChisq-2.4.8-1/FunChisq/man/FunChisq-package.Rd | 30 +- FunChisq-2.4.8-1/FunChisq/man/cond.fun.chisq.test.Rd | 14 - FunChisq-2.4.8-1/FunChisq/man/cp.chisq.test.Rd | 18 - FunChisq-2.4.8-1/FunChisq/man/cp.fun.chisq.test.Rd | 16 - FunChisq-2.4.8-1/FunChisq/man/fun.chisq.test.Rd | 53 +++-- FunChisq-2.4.8-1/FunChisq/man/plot_table.Rd | 2 FunChisq-2.4.8-1/FunChisq/man/simulate_tables.Rd | 2 FunChisq-2.4.8-1/FunChisq/man/test.interactions.Rd | 13 - FunChisq-2.4.8-1/FunChisq/src/EFTNetwork.cpp |only FunChisq-2.4.8-1/FunChisq/src/EFTNetwork.h |only FunChisq-2.4.8-1/FunChisq/src/EFT_DP.cpp |only FunChisq-2.4.8-1/FunChisq/src/EFT_DP.h |only FunChisq-2.4.8-1/FunChisq/src/EFT_DQP.cpp |only FunChisq-2.4.8-1/FunChisq/src/EFT_DQP.h |only FunChisq-2.4.8-1/FunChisq/src/EFT_QP.cpp |only FunChisq-2.4.8-1/FunChisq/src/EFT_QP.h |only FunChisq-2.4.8-1/FunChisq/src/Node.cpp |only FunChisq-2.4.8-1/FunChisq/src/Node.h |only FunChisq-2.4.8-1/FunChisq/src/RcppExports.cpp | 22 ++ FunChisq-2.4.8-1/FunChisq/src/main.cpp | 38 +++ FunChisq-2.4.8-1/FunChisq/tests/testthat/test_CPChisq.R |only FunChisq-2.4.8-1/FunChisq/tests/testthat/test_EFT.R |only FunChisq-2.4.8-1/FunChisq/tests/testthat/test_FunChisq.R | 137 ------------- FunChisq-2.4.8-1/FunChisq/tests/testthat/test_NoiseModel.R | 2 FunChisq-2.4.8-1/FunChisq/vignettes/fun.chisq.test.Rmd | 8 42 files changed, 458 insertions(+), 333 deletions(-)
Title: Robust Methods for Epistasis Detection
Description: Functions to perform robust epistasis detection in genome-wide
association studies, as described in Slim et al. (2018) <doi:10.1101/442749>.
The implemented methods identify pairwise interactions between a particular
target variant and the rest of the genotype, using a propensity score
approach. The propensity score models the linkage disequilibrium between the
target and the rest of the genotype. All methods are penalized regression
approaches, which differently incorporate the propensity score to only
recover the synergistic effects between the target and the genotype.
Author: Lotfi Slim [aut, cre],
Clément Chatelain [ctb],
Chloé-Agathe Azencott [ctb],
Jean-Philippe Vert [ctb]
Maintainer: Lotfi Slim <lotfi.slim@mines-paristech.fr>
Diff between epiGWAS versions 1.0.1 dated 2019-05-21 and 1.0.2 dated 2019-09-08
DESCRIPTION | 12 +++--- MD5 | 20 +++++----- NEWS.md | 4 ++ R/stability.R | 91 +++++++++++++++++++++++++----------------------- inst/doc/epistasis.R | 50 +++++++++++++------------- inst/doc/epistasis.Rmd | 50 +++++++++++++------------- inst/doc/epistasis.html | 15 +++---- man/stabilityBIG.Rd | 7 ++- man/stabilityGLM.Rd | 16 ++++---- man/subsample.Rd | 1 vignettes/epistasis.Rmd | 50 +++++++++++++------------- 11 files changed, 163 insertions(+), 153 deletions(-)
Title: Ternary Plots for Trinomial Regression Models
Description: An implementation of the ternary plot for interpreting regression
coefficients of trinomial regression models, as proposed in Santi, Dickson
and Espa (2019) <doi:10.1080/00031305.2018.1442368>. Ternary plots can be
drawn using either 'ggtern' package (based on 'ggplot2') or 'Ternary'
package (based on standard graphics).
Author: Flavio Santi [cre, aut] (<https://orcid.org/0000-0002-2014-1981>),
Maria Michela Dickson [aut] (<https://orcid.org/0000-0002-4307-0469>),
Giuseppe Espa [aut] (<https://orcid.org/0000-0002-0331-3630>)
Maintainer: Flavio Santi <flavio.santi@univr.it>
Diff between plot3logit versions 1.0.1 dated 2019-02-20 and 1.0.2 dated 2019-09-08
DESCRIPTION | 19 ++-- MD5 | 43 ++++++----- NEWS.md | 23 +++++ R/P2XB.R | 9 +- R/conf-region.R |only R/data.R | 5 - R/field3logit.R | 7 + R/plot3logit-package.R | 8 +- R/read-model.R | 178 ++++++++++++++++++++++++---------------------- R/vdelta.R |only README.md | 9 +- build/partial.rdb |binary build/vignette.rds |only data/cross_1year.RData |binary inst/doc |only man/P2XB.Rd | 9 +- man/XB2P.Rd | 7 + man/confregion.Rd |only man/cross_1year.Rd | 5 - man/field3logit.Rd | 7 + man/get_vdelta.Rd | 2 man/plot3logit-package.Rd | 8 +- man/read_model.Rd | 22 ++++- man/vcovB2vcovDeltaB.Rd |only vignettes |only 25 files changed, 213 insertions(+), 148 deletions(-)
Title: Panel Data Econometrics with R
Description: Data sets for the Panel Data Econometrics with R <doi:10.1002/9781119504641> book.
Author: Yves Croissant [aut, cre],
Giovanni Millo [aut]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>
Diff between pder versions 1.0-0 dated 2017-09-28 and 1.0-1 dated 2019-09-08
pder-1.0-0/pder/data/Donnors.rda |only pder-1.0-0/pder/data/InvRate.rda |only pder-1.0-0/pder/data/SovereignDefault.rda |only pder-1.0-0/pder/man/Donnors.Rd |only pder-1.0-0/pder/man/Index.Econometrics.Rd |only pder-1.0-0/pder/man/Index.Economics.Rd |only pder-1.0-0/pder/man/InvRate.Rd |only pder-1.0-0/pder/man/SovereignDefault.Rd |only pder-1.0-1/pder/DESCRIPTION | 15 +- pder-1.0-1/pder/MD5 | 153 ++++++++++------------ pder-1.0-1/pder/build |only pder-1.0-1/pder/data/CallBacks.rda |binary pder-1.0-1/pder/data/CoordFailure.rda |binary pder-1.0-1/pder/data/DemocracyIncome.rda |binary pder-1.0-1/pder/data/DemocracyIncome25.rda |binary pder-1.0-1/pder/data/Dialysis.rda |binary pder-1.0-1/pder/data/Donors.rda |only pder-1.0-1/pder/data/EvapoTransp.rda |binary pder-1.0-1/pder/data/FinanceGrowth.rda |binary pder-1.0-1/pder/data/ForeignTrade.rda |binary pder-1.0-1/pder/data/GiantsShoulders.rda |binary pder-1.0-1/pder/data/HousePricesUS.rda |binary pder-1.0-1/pder/data/IncomeMigrationH.rda |binary pder-1.0-1/pder/data/IncomeMigrationV.rda |binary pder-1.0-1/pder/data/IneqGrowth.rda |binary pder-1.0-1/pder/data/LandReform.rda |binary pder-1.0-1/pder/data/LateBudgets.rda |binary pder-1.0-1/pder/data/Mafia.rda |binary pder-1.0-1/pder/data/MagazinePrices.rda |binary pder-1.0-1/pder/data/RDPerfComp.rda |binary pder-1.0-1/pder/data/RDSpillovers.rda |binary pder-1.0-1/pder/data/Reelection.rda |binary pder-1.0-1/pder/data/RegIneq.rda |binary pder-1.0-1/pder/data/ScrambleAfrica.rda |binary pder-1.0-1/pder/data/SeatBelt.rda |binary pder-1.0-1/pder/data/Seniors.rda |binary pder-1.0-1/pder/data/Solow.rda |binary pder-1.0-1/pder/data/TexasElectr.rda |binary pder-1.0-1/pder/data/Tileries.rda |binary pder-1.0-1/pder/data/TobinQ.rda |binary pder-1.0-1/pder/data/TradeEU.rda |binary pder-1.0-1/pder/data/TradeFDI.rda |binary pder-1.0-1/pder/data/TurkishBanks.rda |binary pder-1.0-1/pder/data/TwinCrises.rda |binary pder-1.0-1/pder/data/datalist | 4 pder-1.0-1/pder/data/etw.rda |binary pder-1.0-1/pder/data/usaw46.rda |binary pder-1.0-1/pder/data/usaw49.rda |binary pder-1.0-1/pder/man/CallBacks.Rd | 31 ++-- pder-1.0-1/pder/man/CoordFailure.Rd | 31 ++-- pder-1.0-1/pder/man/DemocracyIncome.Rd | 138 +++++++++++++++++--- pder-1.0-1/pder/man/DemocracyIncome25.Rd | 70 ++++++++-- pder-1.0-1/pder/man/Dialysis.Rd | 44 ++++-- pder-1.0-1/pder/man/Donors.Rd |only pder-1.0-1/pder/man/EvapoTransp.Rd | 58 ++++++-- pder-1.0-1/pder/man/FinanceGrowth.Rd | 34 ++-- pder-1.0-1/pder/man/ForeignTrade.Rd | 112 +++++++++++++--- pder-1.0-1/pder/man/GiantsShoulders.Rd | 71 ++++++++-- pder-1.0-1/pder/man/HousePricesUS.Rd | 200 ++++++++++++++++++++++++++--- pder-1.0-1/pder/man/IncomeMigrationH.Rd | 29 +--- pder-1.0-1/pder/man/IncomeMigrationV.Rd | 31 ++-- pder-1.0-1/pder/man/IneqGrowth.Rd | 32 ++-- pder-1.0-1/pder/man/LandReform.Rd | 55 +++---- pder-1.0-1/pder/man/LateBudgets.Rd | 58 +++++--- pder-1.0-1/pder/man/Mafia.Rd | 29 +--- pder-1.0-1/pder/man/MagazinePrices.Rd | 50 ++++--- pder-1.0-1/pder/man/RDPerfComp.Rd | 31 ++-- pder-1.0-1/pder/man/RDSpillovers.Rd | 164 +++++++++++++++++++++-- pder-1.0-1/pder/man/Reelection.Rd | 56 +++++--- pder-1.0-1/pder/man/RegIneq.Rd | 29 +--- pder-1.0-1/pder/man/ScrambleAfrica.Rd | 27 ++- pder-1.0-1/pder/man/SeatBelt.Rd | 59 ++++++-- pder-1.0-1/pder/man/Seniors.Rd | 117 ++++++++-------- pder-1.0-1/pder/man/Solow.Rd | 33 ++-- pder-1.0-1/pder/man/TexasElectr.Rd | 93 +++++++++++-- pder-1.0-1/pder/man/Tileries.Rd | 127 +++++++++++++++--- pder-1.0-1/pder/man/TobinQ.Rd | 143 +++++++++++++++++--- pder-1.0-1/pder/man/TradeEU.Rd | 66 +++++++-- pder-1.0-1/pder/man/TradeFDI.Rd | 29 +--- pder-1.0-1/pder/man/TurkishBanks.Rd | 41 +++-- pder-1.0-1/pder/man/TwinCrises.Rd | 28 +--- pder-1.0-1/pder/man/etw.Rd | 7 - pder-1.0-1/pder/man/index.chapter.Rd |only pder-1.0-1/pder/man/index.jel.Rd |only 84 files changed, 1638 insertions(+), 657 deletions(-)
Title: Check for Namespace Collisions with Other Packages and Functions
on CRAN
Description: Check for namespace collisions between a string input (your function or package name) and a quarter of a million packages and functions on CRAN.
Author: Steve Condylios [aut, cre] (<https://orcid.org/0000-0003-0599-844X>)
Maintainer: Steve Condylios <steve.condylios@gmail.com>
Diff between collidr versions 0.1.1 dated 2019-07-18 and 0.1.2 dated 2019-09-08
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 3 +++ R/collisions.R | 35 +++++++++++++++++------------------ data/CRANdf.RData |binary man/getCRAN.Rd | 8 +------- 6 files changed, 30 insertions(+), 34 deletions(-)
Title: Piece-Wise Exponential Additive Mixed Modeling Tools for
Survival Analysis
Description: The Piece-wise exponential (Additive Mixed) Model
(PAMM; Bender and Scheipl (2018) <doi: 10.1177/1471082X17748083>) is a
powerful model class for the analysis of survival (or time-to-event) data,
based on Generalized Additive (Mixed) Models (GA(M)Ms). It offers intuitive specification and robust estimation of complex survival models with stratified baseline hazards, random effects, time-varying effects, time-dependent covariates and cumulative effects (Bender and others (2018) <doi:10.1093/biostatistics/kxy003>.
pammtools provides tidy workflow for survival analysis with PAMMs,
including data simulation, transformation and other functions for data
preprocessing and model post-processing as well as visualization.
Author: Andreas Bender [aut, cre] (<https://orcid.org/0000-0001-5628-8611>),
Fabian Scheipl [aut]
Maintainer: Andreas Bender <andreas.bender@stat.uni-muenchen.de>
Diff between pammtools versions 0.1.11 dated 2019-04-18 and 0.1.14 dated 2019-09-08
pammtools-0.1.11/pammtools/man/add_term2.Rd |only pammtools-0.1.11/pammtools/man/split_tdc.Rd |only pammtools-0.1.14/pammtools/DESCRIPTION | 24 - pammtools-0.1.14/pammtools/MD5 | 56 +- pammtools-0.1.14/pammtools/NAMESPACE | 4 pammtools-0.1.14/pammtools/NEWS.md | 15 pammtools-0.1.14/pammtools/R/add-functions.R | 197 ++++------ pammtools-0.1.14/pammtools/R/formula-specials.R | 8 pammtools-0.1.14/pammtools/R/nest-utils.R | 18 pammtools-0.1.14/pammtools/R/sim-pexp.R | 29 - pammtools-0.1.14/pammtools/R/tidyverse-methods.R | 21 - pammtools-0.1.14/pammtools/R/transform-tdc.R | 85 ---- pammtools-0.1.14/pammtools/R/viz-elra.R | 8 pammtools-0.1.14/pammtools/R/zzz.R | 19 pammtools-0.1.14/pammtools/README.md | 17 pammtools-0.1.14/pammtools/man/add_hazard.Rd | 34 - pammtools-0.1.14/pammtools/man/add_surv_prob.Rd | 4 pammtools-0.1.14/pammtools/man/add_term.Rd | 48 +- pammtools-0.1.14/pammtools/man/dplyr_verbs.Rd | 12 pammtools-0.1.14/pammtools/man/figures/logo.png |binary pammtools-0.1.14/pammtools/man/geom_hazard.Rd | 3 pammtools-0.1.14/pammtools/man/geom_stepribbon.Rd | 3 pammtools-0.1.14/pammtools/man/get_cumu_hazard.Rd | 4 pammtools-0.1.14/pammtools/man/get_hazard.Rd | 31 - pammtools-0.1.14/pammtools/man/get_surv_prob.Rd | 4 pammtools-0.1.14/pammtools/man/tidyr_verbs.Rd | 7 pammtools-0.1.14/pammtools/tests/testthat/test-add-functions.R | 49 +- pammtools-0.1.14/pammtools/tests/testthat/test-specials.R | 2 pammtools-0.1.14/pammtools/tests/testthat/test-tdc-transform.R | 21 - pammtools-0.1.14/pammtools/tests/testthat/test-tidyverse-S3methods.R | 10 30 files changed, 317 insertions(+), 416 deletions(-)
Title: Joint Frailty-Copula Models for Tumour Progression and Death in
Meta-Analysis
Description: Perform likelihood estimation and dynamic prediction under
joint frailty-copula models for tumour progression and death in meta-analysis.
A penalized likelihood method is employed for estimating model parameters, where the baseline hazard functions are modeled by smoothing splines.
The methods are applicable for meta-analytic data combining several studies.
The methods can analyze data having information on both terminal event time (e.g., time-to-death) and non-terminal event time (e.g., time-to-tumour progression).
See Emura et al. (2017) <doi:10.1177/0962280215604510> for likelihood estimation, and
Emura et al. (2018) <doi:10.1177/0962280216688032> for dynamic prediction.
More details on these methods can also be found in a book of Emura et al. (2019) <10.1007/978-981-13-3516-7>.
Survival data from ovarian cancer patients are also available.
Author: Takeshi Emura
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between joint.Cox versions 3.4 dated 2019-07-18 and 3.5 dated 2019-09-08
DESCRIPTION | 9 +++++---- MD5 | 20 +++++++++++--------- NAMESPACE | 2 +- R/Weibull.simu.R | 10 ++++++---- R/jointCox.Weibull.reg.R | 14 +++++++------- R/jointCox.indep.reg.R | 6 +++--- R/jointCox.reg.R | 6 +++--- R/jointCox.reg1.R |only man/Weibull.simu.Rd | 12 ++++++++++-- man/joint.Cox-package.Rd | 7 +++++-- man/jointCox.reg.Rd | 7 ++++--- man/jointCox.reg1.Rd |only 12 files changed, 55 insertions(+), 38 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-02 0.1.14-9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-06 0.3.2
2019-03-16 0.3.1
2017-11-07 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-04 1.1
2019-08-30 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-10-23 1.0-1
Title: Optimal Level of Significance for Regression and Other
Statistical Tests
Description: Calculates the optimal level of significance based on a decision-theoretic approach.
The optimal level is chosen so that the expected loss from hypothesis testing is minimized.
A range of statistical tests are covered, including the test for the population mean, population proportion, and a linear restriction in a multiple regression model.
The details are covered in Kim, Jae H. and Choi, In, 2019, Choosing the Level of Significance: A Decision-Theoretic Approach, Abacus.
See also Kim and Ji (2015) <doi:10.1016/j.jempfin.2015.08.006>.
Author: Jae H. Kim <J.Kim@latrobe.edu.au>
Maintainer: Jae H. Kim <J.Kim@latrobe.edu.au>
Diff between OptSig versions 1.0 dated 2017-12-21 and 2.0 dated 2019-09-08
OptSig-1.0/OptSig/R/Opt.Sig.Chisq.R |only OptSig-1.0/OptSig/R/Opt.Sig.R |only OptSig-1.0/OptSig/R/Opt.SigBoot.R |only OptSig-1.0/OptSig/R/Opt.SigBootWeight.R |only OptSig-1.0/OptSig/R/Opt.SigWeight.R |only OptSig-1.0/OptSig/R/Opt.sig.2p.test.R |only OptSig-1.0/OptSig/R/Opt.sig.2p2n.test.R |only OptSig-1.0/OptSig/R/Opt.sig.anova.test.R |only OptSig-1.0/OptSig/R/Opt.sig.chisq.test.R |only OptSig-1.0/OptSig/R/Opt.sig.p.test.R |only OptSig-1.0/OptSig/R/Opt.sig.r.test.R |only OptSig-1.0/OptSig/R/Opt.sig.t2n.test.R |only OptSig-1.0/OptSig/man/Opt.Sig.Chisq.Rd |only OptSig-1.0/OptSig/man/Opt.Sig.Rd |only OptSig-1.0/OptSig/man/Opt.SigBoot.Rd |only OptSig-1.0/OptSig/man/Opt.SigBootWeight.Rd |only OptSig-1.0/OptSig/man/Opt.SigWeight.Rd |only OptSig-1.0/OptSig/man/Opt.sig.2p.test.Rd |only OptSig-1.0/OptSig/man/Opt.sig.2p2n.test.Rd |only OptSig-1.0/OptSig/man/Opt.sig.anova.test.Rd |only OptSig-1.0/OptSig/man/Opt.sig.chisq.test.Rd |only OptSig-1.0/OptSig/man/Opt.sig.p.test.Rd |only OptSig-1.0/OptSig/man/Opt.sig.r.test.Rd |only OptSig-1.0/OptSig/man/Opt.sig.t2n.test.Rd |only OptSig-1.0/OptSig/man/OptSig-package.Rd |only OptSig-2.0/OptSig/DESCRIPTION | 10 ++-- OptSig-2.0/OptSig/MD5 | 65 +++++++++++++--------------- OptSig-2.0/OptSig/NAMESPACE | 4 - OptSig-2.0/OptSig/R/E.loss.R |only OptSig-2.0/OptSig/R/Opt.sig.norm.test.R | 24 ++++------ OptSig-2.0/OptSig/R/Opt.sig.t.test.R | 24 ++++------ OptSig-2.0/OptSig/R/OptSig..2p.R |only OptSig-2.0/OptSig/R/OptSig.2p2n.R |only OptSig-2.0/OptSig/R/OptSig.Boot.R |only OptSig-2.0/OptSig/R/OptSig.BootWeight.R |only OptSig-2.0/OptSig/R/OptSig.Chisq.R |only OptSig-2.0/OptSig/R/OptSig.F.R |only OptSig-2.0/OptSig/R/OptSig.Weight.R |only OptSig-2.0/OptSig/R/OptSig.p.R |only OptSig-2.0/OptSig/R/OptSig.r.R |only OptSig-2.0/OptSig/R/OptSig.t2n.R |only OptSig-2.0/OptSig/R/Optsig.anova.R |only OptSig-2.0/OptSig/build/partial.rdb |binary OptSig-2.0/OptSig/man/Opt.sig.norm.test.Rd | 23 ++++++++- OptSig-2.0/OptSig/man/Opt.sig.t.test.Rd | 23 ++++++++- OptSig-2.0/OptSig/man/OptSig.2p.Rd |only OptSig-2.0/OptSig/man/OptSig.2p2n.Rd |only OptSig-2.0/OptSig/man/OptSig.Boot.Rd |only OptSig-2.0/OptSig/man/OptSig.BootWeight.Rd |only OptSig-2.0/OptSig/man/OptSig.Chisq.Rd |only OptSig-2.0/OptSig/man/OptSig.F.Rd |only OptSig-2.0/OptSig/man/OptSig.Weight.Rd |only OptSig-2.0/OptSig/man/OptSig.anova.Rd |only OptSig-2.0/OptSig/man/OptSig.p.Rd |only OptSig-2.0/OptSig/man/OptSig.r.Rd |only OptSig-2.0/OptSig/man/OptSig.t2n.Rd |only OptSig-2.0/OptSig/man/OptSig2-package.Rd |only OptSig-2.0/OptSig/man/data1.Rd | 2 58 files changed, 101 insertions(+), 74 deletions(-)
Title: Circular Visualization
Description: Circular layout is an efficient way for the visualization of huge
amounts of information. Here this package provides an implementation
of circular layout generation in R as well as an enhancement of available
software. The flexibility of the package is based on the usage of low-level
graphics functions such that self-defined high-level graphics can be easily
implemented by users for specific purposes. Together with the seamless
connection between the powerful computational and visual environment in R,
it gives users more convenience and freedom to design figures for
better understanding complex patterns behind multiple dimensional data.
Author: Zuguang Gu
Maintainer: Zuguang Gu <z.gu@dkfz.de>
Diff between circlize versions 0.4.7 dated 2019-08-21 and 0.4.8 dated 2019-09-08
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS | 7 +++++++ R/chordDiagram.R | 28 ++++++++++++++++++++-------- R/genomic.R | 18 ++++++++++++++++-- R/genomic_utils.R | 5 +++++ R/utils.R | 14 ++++++++------ man/chordDiagram.rd | 4 +++- man/chordDiagramFromDataFrame.rd | 5 +++-- man/chordDiagramFromMatrix.rd | 4 +++- man/circos.genomicHeatmap.rd | 5 +++-- 11 files changed, 82 insertions(+), 36 deletions(-)
Title: Welch-James Statistic for Robust Hypothesis Testing under
Heterocedasticity and Non-Normality
Description: Implementation of Johansen's general formulation of Welch-James's statistic with Approximate Degrees of Freedom, which makes it suitable for testing
any linear hypothesis concerning cell means in univariate and multivariate mixed model designs when the data pose non-normality and non-homogeneous variance. Some
improvements, namely trimmed means and Winsorized variances, and bootstrapping for calculating an empirical critical value, have been added to the classical formulation.
The code departs from a previous SAS implementation by L.M. Lix and H.J. Keselman, available at <http://supp.apa.org/psycarticles/supplemental/met_13_2_110/SAS_Program.pdf> and
published in Keselman, H.J., Wilcox, R.R., and Lix, L.M. (2003) <DOI:10.1111/1469-8986.00060>.
Author: Pablo J. Villacorta <pjvi@decsai.ugr.es>
Maintainer: Pablo J. Villacorta <pjvi@decsai.ugr.es>
Diff between welchADF versions 0.3.1 dated 2019-05-11 and 0.3.2 dated 2019-09-08
welchADF-0.3.1/welchADF/inst/doc/rjournal-vignette.Rnw |only welchADF-0.3.1/welchADF/inst/doc/rjournal-vignette.pdf |only welchADF-0.3.1/welchADF/vignettes/rjournal-vignette.Rnw |only welchADF-0.3.2/welchADF/DESCRIPTION | 8 +-- welchADF-0.3.2/welchADF/MD5 | 24 +++++------ welchADF-0.3.2/welchADF/R/data.R | 18 +++++--- welchADF-0.3.2/welchADF/R/robust-interaction.R | 4 + welchADF-0.3.2/welchADF/R/welch-wrapper.R | 6 +- welchADF-0.3.2/welchADF/build/vignette.rds |binary welchADF-0.3.2/welchADF/inst/doc/Villacorta-RJ-2017-049.Rnw |only welchADF-0.3.2/welchADF/inst/doc/Villacorta-RJ-2017-049.pdf |only welchADF-0.3.2/welchADF/man/adhdData2.Rd | 6 +- welchADF-0.3.2/welchADF/man/perceptionData.Rd | 6 +- welchADF-0.3.2/welchADF/man/welchADF.test.Rd | 6 +- welchADF-0.3.2/welchADF/man/womenStereotypeData.Rd | 6 +- welchADF-0.3.2/welchADF/vignettes/Villacorta-RJ-2017-049.Rnw |only 16 files changed, 52 insertions(+), 32 deletions(-)
Title: Block Design for Response-Adaptive Randomization
Description: Computes power for response-adaptive randomization with a block design that captures both the time and treatment effect. T. Chandereng, R. Chappell (2019) <arXiv:1904.07758>.
Author: Thevaa Chandereng [aut, cre, cph]
(<https://orcid.org/0000-0003-4078-9176>),
Rick Chapppell [aut, cph]
Maintainer: Thevaa Chandereng <chandereng@wisc.edu>
Diff between blockRAR versions 1.0.0 dated 2019-04-27 and 1.0.1 dated 2019-09-08
DESCRIPTION | 7 - MD5 | 12 +- R/binomialbayes.R | 12 +- R/binomialfreq.R | 41 ++-------- README.md | 1 inst/doc/blockRAR.html | 165 +++++++++++++++++++++-------------------- tests/testthat/test_binomial.R | 2 7 files changed, 117 insertions(+), 123 deletions(-)