Title: Truncated Positive Normal Model and Extensions
Description: Provide data generation and estimation tools for the truncated positive normal (tpn)
model discussed in Gomez, Olmos, Varela and Bolfarine (2018)
<doi:10.1007/s11766-018-3354-x>, the slash tpn distribution discussed in Gomez,
Gallardo and Santoro (2021) <doi:10.3390/sym13112164>, the bimodal tpn distribution
discussed in Gomez et al. (2022) <doi:10.3390/sym14040665>, the flexible tpn model
<doi:10.3390/math11214431> and the unit tpn distribution <doi:10.1016/j.chemolab.2025.105322>.
Author: Diego Gallardo [aut, cre],
Hector J. Gomez [aut],
Yolanda M. Gomez [aut]
Maintainer: Diego Gallardo <dgallardo@ubiobio.cl>
Diff between tpn versions 1.10 dated 2025-04-04 and 1.11 dated 2025-05-21
DESCRIPTION | 11 ++++++----- MD5 | 10 +++++----- NEWS.md | 7 ++++++- R/est.tpt.R | 2 +- man/est.tpt.Rd | 2 +- man/tpt.Rd | 2 +- 6 files changed, 20 insertions(+), 14 deletions(-)
Title: Assess Study Cohorts Using a Common Data Model
Description: Phenotype study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model. Diagnostics
are run at the database, code list, cohort, and population level to assess
whether study cohorts are ready for research.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Xihang Chen [aut] ,
Marta Alcalde-Herraiz [aut] ,
Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between PhenotypeR versions 0.1.4 dated 2025-03-28 and 0.1.5 dated 2025-05-21
PhenotypeR-0.1.4/PhenotypeR/inst/doc/a01_DatabaseDiagnostics.R |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a01_DatabaseDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a01_DatabaseDiagnostics.html |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a02_CodelistDiagnostics.R |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a02_CodelistDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a02_CodelistDiagnostics.html |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a03_CohortDiagnostics.R |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a03_CohortDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a03_CohortDiagnostics.html |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a04_MatchedDiagnostics.R |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a04_MatchedDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a04_MatchedDiagnostics.html |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a05_PopulationDiagnostics.R |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a05_PopulationDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/inst/doc/a05_PopulationDiagnostics.html |only PhenotypeR-0.1.4/PhenotypeR/vignettes/a01_DatabaseDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/vignettes/a02_CodelistDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/vignettes/a03_CohortDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/vignettes/a04_MatchedDiagnostics.Rmd |only PhenotypeR-0.1.4/PhenotypeR/vignettes/a05_PopulationDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/DESCRIPTION | 24 + PhenotypeR-0.1.5/PhenotypeR/MD5 | 78 +++--- PhenotypeR-0.1.5/PhenotypeR/R/addCodelistAttribute.R | 4 PhenotypeR-0.1.5/PhenotypeR/R/matchedDiagnostics.R | 17 + PhenotypeR-0.1.5/PhenotypeR/R/phenotypeR-package.R | 16 - PhenotypeR-0.1.5/PhenotypeR/R/shinyDiagnostics.R | 46 +++ PhenotypeR-0.1.5/PhenotypeR/R/utils-pipe.R | 28 +- PhenotypeR-0.1.5/PhenotypeR/README.md | 2 PhenotypeR-0.1.5/PhenotypeR/build/vignette.rds |binary PhenotypeR-0.1.5/PhenotypeR/inst/doc/a01_PhenotypeDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a01_PhenotypeDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a01_PhenotypeDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a02_ShinyDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a02_ShinyDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a02_ShinyDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a03_DatabaseDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a03_DatabaseDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a03_DatabaseDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a04_CodelistDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a04_CodelistDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a04_CodelistDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a05_CohortDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a05_CohortDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a05_CohortDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a06_MatchedDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a06_MatchedDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a06_MatchedDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a07_PopulationDiagnostics.R |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a07_PopulationDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/inst/doc/a07_PopulationDiagnostics.html |only PhenotypeR-0.1.5/PhenotypeR/inst/shiny/global.R | 63 +++- PhenotypeR-0.1.5/PhenotypeR/inst/shiny/scripts/preprocess.R | 2 PhenotypeR-0.1.5/PhenotypeR/inst/shiny/server.R | 130 +++++++--- PhenotypeR-0.1.5/PhenotypeR/inst/shiny/ui.R | 24 + PhenotypeR-0.1.5/PhenotypeR/man/figures/logo.png |binary PhenotypeR-0.1.5/PhenotypeR/man/pipe.Rd | 40 +-- PhenotypeR-0.1.5/PhenotypeR/tests/testthat/test-addCodelistAttribute.R | 8 PhenotypeR-0.1.5/PhenotypeR/vignettes/a01_PhenotypeDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/vignettes/a02_ShinyDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/vignettes/a03_DatabaseDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/vignettes/a04_CodelistDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/vignettes/a05_CohortDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/vignettes/a06_MatchedDiagnostics.Rmd |only PhenotypeR-0.1.5/PhenotypeR/vignettes/a07_PopulationDiagnostics.Rmd |only 64 files changed, 320 insertions(+), 162 deletions(-)
Title: Estimating the Optimal Number of Migration Edges from 'Treemix'
Description: The popular population genetic software 'Treemix' by
'Pickrell and Pritchard' (2012) <DOI:10.1371/journal.pgen.1002967>
estimates the number of migration edges on a population tree.
However, it can be difficult to determine the number of migration
edges to include. Previously, it was customary to stop adding migration
edges when 99.8% of variation in the data was explained, but 'OptM'
automates this process using an ad hoc statistic based on the
second-order rate of change in the log likelihood. 'OptM' also
has added functionality for various threshold modeling
to compare with the ad hoc statistic.
Author: Robert Fitak [aut, cre]
Maintainer: Robert Fitak <rfitak9@gmail.com>
Diff between OptM versions 0.1.8 dated 2024-06-16 and 0.1.9 dated 2025-05-21
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/optM.R | 37 ++++++++++++++++++++++--------------- README.md | 3 +++ man/optM.Rd | 4 ++-- 5 files changed, 36 insertions(+), 26 deletions(-)
Title: Inline Asynchronous Generator Results into Documents
Description: Given a 'coro' asynchronous generator instance that produces text,
write that text into a document selection in 'RStudio' and 'Positron'. This
is particularly helpful for streaming large language model responses into
the user's editor.
Author: Simon Couch [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between streamy versions 0.1.0 dated 2025-02-11 and 0.2.0 dated 2025-05-21
DESCRIPTION | 6 - MD5 | 13 ++- NEWS.md | 13 +++ R/stream.R | 199 ++++++++++++++++++++++++++++++++++++++++++---------------- R/utils.R | 25 ++++++- README.md | 6 + man/figures |only man/stream.Rd | 2 8 files changed, 195 insertions(+), 69 deletions(-)
Title: Functional Data Analysis
Description: These functions were developed to support functional data
analysis as described in Ramsay, J. O. and Silverman, B. W.
(2005) Functional Data Analysis. New York: Springer and in
Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009).
Functional Data Analysis with R and Matlab (Springer).
The package includes data sets and script files working many examples
including all but one of the 76 figures in this latter book. Matlab versions
are available by ftp from
<https://www.psych.mcgill.ca/misc/fda/downloads/FDAfuns/>.
Author: James Ramsay [aut, cre],
Giles Hooker [ctb],
Spencer Graves [ctb]
Maintainer: James Ramsay <ramsay@psych.mcgill.ca>
Diff between fda versions 6.2.0 dated 2024-09-17 and 6.3.0 dated 2025-05-21
fda-6.2.0/fda/R/density.fd.R |only fda-6.2.0/fda/R/smooth.surp.R |only fda-6.2.0/fda/inst/scripts |only fda-6.2.0/fda/man/ElectricDemand.Rd |only fda-6.2.0/fda/man/density.fd.Rd |only fda-6.2.0/fda/man/eval.surp.Rd |only fda-6.2.0/fda/man/smooth.surp.Rd |only fda-6.2.0/fda/man/surp.fit.Rd |only fda-6.3.0/fda/DESCRIPTION | 13 + fda-6.3.0/fda/MD5 | 64 ++------- fda-6.3.0/fda/NAMESPACE | 5 fda-6.3.0/fda/build/vignette.rds |binary fda-6.3.0/fda/inst/doc/BasisBasics.html | 173 +++++++++++++++---------- fda-6.3.0/fda/inst/doc/monotoneFunctions.R | 11 + fda-6.3.0/fda/inst/doc/monotoneFunctions.Rmd | 12 + fda-6.3.0/fda/inst/doc/monotoneFunctions.html | 151 ++++++++++++---------- fda-6.3.0/fda/inst/doc/splineFunctions.html | 177 ++++++++++++++++---------- fda-6.3.0/fda/man/fd.Rd | 11 - fda-6.3.0/fda/man/fdPar.Rd | 1 fda-6.3.0/fda/man/intensity.fd.Rd | 3 fda-6.3.0/fda/man/lnsrch.Rd | 3 fda-6.3.0/fda/man/smooth.pos.Rd | 1 fda-6.3.0/fda/man/ycheck.Rd | 3 fda-6.3.0/fda/man/zerobasis.Rd | 4 fda-6.3.0/fda/vignettes/monotoneFunctions.Rmd | 12 + 25 files changed, 355 insertions(+), 289 deletions(-)
Title: Simultaneous Confidence Bands for the Mean of Functional Data
Description: Statistical methods for estimating and inferring the mean of functional data. The methods include simultaneous confidence bands, local polynomial fitting, bandwidth selection by plug-in and cross-validation, goodness-of-fit tests for parametric models, equality tests for two-sample problems, and plotting functions.
Author: David Degras [aut, cre]
Maintainer: David Degras <ddegrasv@gmail.com>
Diff between SCBmeanfd versions 1.2.2 dated 2016-12-27 and 1.2.3 dated 2025-05-21
SCBmeanfd-1.2.2/SCBmeanfd/R/SCBmeanfd-internal.R |only SCBmeanfd-1.2.3/SCBmeanfd/DESCRIPTION | 16 ++++++++++------ SCBmeanfd-1.2.3/SCBmeanfd/MD5 | 5 ++--- SCBmeanfd-1.2.3/SCBmeanfd/man/phoneme.Rd | 5 ++--- 4 files changed, 14 insertions(+), 12 deletions(-)
Title: Quantile Regression for Nonlinear Mixed-Effects Models
Description: Quantile regression (QR) for Nonlinear
Mixed-Effects Models via the asymmetric Laplace distribution (ALD).
It uses the Stochastic Approximation of the EM (SAEM) algorithm for
deriving exact maximum likelihood estimates and full inference result
is
for the fixed-effects and variance components.
It also provides prediction and graphical summaries for assessing the algorithm
convergence and fitting results.
Author: Christian E. Galarza [aut, cre],
Victor H. Lachos [aut]
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between qrNLMM versions 3.4 dated 2024-07-12 and 4.0 dated 2025-05-21
qrNLMM-3.4/qrNLMM/data/HIV.txt |only qrNLMM-3.4/qrNLMM/data/Soybean.txt |only qrNLMM-3.4/qrNLMM/man/qrNLMM-package.Rd |only qrNLMM-4.0/qrNLMM/DESCRIPTION | 22 +++- qrNLMM-4.0/qrNLMM/MD5 | 21 ++-- qrNLMM-4.0/qrNLMM/R/HelpfulFunctions.R | 96 ++++++++++++-------- qrNLMM-4.0/qrNLMM/R/QRNLMM.R | 147 ++++++++++++++++++++------------ qrNLMM-4.0/qrNLMM/R/QSAEM_NLMM.R | 10 +- qrNLMM-4.0/qrNLMM/build/partial.rdb |binary qrNLMM-4.0/qrNLMM/data/HIV.txt.gz |only qrNLMM-4.0/qrNLMM/data/Soybean.txt.gz |only qrNLMM-4.0/qrNLMM/man/HIV.Rd | 22 ---- qrNLMM-4.0/qrNLMM/man/QRNLMM.Rd | 60 +++++++------ qrNLMM-4.0/qrNLMM/man/Soybean.Rd | 61 +++++++------ 14 files changed, 255 insertions(+), 184 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-06-10 0.1.7
2011-06-23 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-07-22 0.9.3.3
2021-05-23 0.9.3.2
2021-01-10 0.9.3.1
2020-10-14 0.9.3
2020-07-20 0.9.2
2020-04-13 0.9.1
2020-03-20 0.9.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-20 1.3.0
2023-05-18 1.2.9
2022-10-13 1.2.8
2022-05-29 1.2.7
2021-12-13 1.2.6
2021-12-06 1.2.5
2021-11-17 1.2.4
2021-07-26 1.2.3
2019-12-02 1.2.2
2019-09-15 1.2.1
2019-05-01 1.2
2019-01-07 1.1
2019-01-04 1.0
2017-03-21 0.5
2016-10-30 0.4
2016-10-21 0.3
2016-10-15 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-05-13 0.91.61
2024-02-27 0.91.6
2022-08-29 0.91.5
2022-08-18 0.91.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-03-14 5.3.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-27 0.4.0
2022-04-21 0.3.0
2022-04-02 0.2.1
2021-07-01 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-25 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-16 1.0-4.2
2014-09-23 1.0-4.1
2013-03-23 1.0-4
2010-04-17 1.0-3
2006-11-30 1.0-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-12-19 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-08-15 1.1
2016-06-24 1.0
Title: Pharmacokinetic Bioanalysis Experiments Design and Exploration
Description: Automate pharmacokinetic/pharmacodynamic bioanalytical procedures based on best practices and regulatory recommendations.
The package impose regulatory constrains and sanity checking for common bioanalytical procedures.
Additionally, 'PKbioanalysis' provides a relational infrastructure for plate management and injection sequence.
Author: Omar Elashkar [aut, cre]
Maintainer: Omar Elashkar <omar.i.elashkar@gmail.com>
Diff between PKbioanalysis versions 0.2.0 dated 2024-10-02 and 0.3.0 dated 2025-05-21
PKbioanalysis-0.2.0/PKbioanalysis/R/schema.R |only PKbioanalysis-0.2.0/PKbioanalysis/build |only PKbioanalysis-0.2.0/PKbioanalysis/inst/doc |only PKbioanalysis-0.2.0/PKbioanalysis/man/add_qcs.Rd |only PKbioanalysis-0.2.0/PKbioanalysis/vignettes |only PKbioanalysis-0.3.0/PKbioanalysis/DESCRIPTION | 21 PKbioanalysis-0.3.0/PKbioanalysis/MD5 | 73 PKbioanalysis-0.3.0/PKbioanalysis/NAMESPACE | 29 PKbioanalysis-0.3.0/PKbioanalysis/NEWS.md | 5 PKbioanalysis-0.3.0/PKbioanalysis/R/PKbioanalysis-package.R | 110 - PKbioanalysis-0.3.0/PKbioanalysis/R/dil_map.R | 36 PKbioanalysis-0.3.0/PKbioanalysis/R/estim_residuals.R |only PKbioanalysis-0.3.0/PKbioanalysis/R/injec_list.R | 378 ---- PKbioanalysis-0.3.0/PKbioanalysis/R/method_file.R | 116 + PKbioanalysis-0.3.0/PKbioanalysis/R/plate.R | 805 ++++++---- PKbioanalysis-0.3.0/PKbioanalysis/R/plate_app.R | 287 ++- PKbioanalysis-0.3.0/PKbioanalysis/R/plates_class.R |only PKbioanalysis-0.3.0/PKbioanalysis/R/utils.R | 102 - PKbioanalysis-0.3.0/PKbioanalysis/README.md | 40 PKbioanalysis-0.3.0/PKbioanalysis/inst/cmpds.yaml | 45 PKbioanalysis-0.3.0/PKbioanalysis/inst/cmpdsx.xlsx |only PKbioanalysis-0.3.0/PKbioanalysis/man/PKbioanalysis-package.Rd | 5 PKbioanalysis-0.3.0/PKbioanalysis/man/add_DQC.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/add_QC.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/add_cs_curve.Rd | 4 PKbioanalysis-0.3.0/PKbioanalysis/man/add_samples.Rd | 29 PKbioanalysis-0.3.0/PKbioanalysis/man/add_samples_c.Rd | 14 PKbioanalysis-0.3.0/PKbioanalysis/man/build_injec_seq-MultiPlate-method.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/build_injec_seq-PlateObj-method.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/build_injec_seq.Rd | 2 PKbioanalysis-0.3.0/PKbioanalysis/man/download_sample_list.Rd | 4 PKbioanalysis-0.3.0/PKbioanalysis/man/figures |only PKbioanalysis-0.3.0/PKbioanalysis/man/fill_scheme.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/generate_96.Rd | 8 PKbioanalysis-0.3.0/PKbioanalysis/man/length-MultiPlate-method.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/plot.PlateObj.Rd | 12 PKbioanalysis-0.3.0/PKbioanalysis/man/plot_design.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/register_plate-MultiPlate-method.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/register_plate-PlateObj-method.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/register_plate.Rd | 2 PKbioanalysis-0.3.0/PKbioanalysis/man/sub-sub-MultiPlate-method.Rd |only PKbioanalysis-0.3.0/PKbioanalysis/man/write_injec_seq.Rd | 4 PKbioanalysis-0.3.0/PKbioanalysis/tests/testthat/test-dil_map.R | 30 PKbioanalysis-0.3.0/PKbioanalysis/tests/testthat/test-injec_list.R | 3 PKbioanalysis-0.3.0/PKbioanalysis/tests/testthat/test-plate.R | 236 ++ PKbioanalysis-0.3.0/PKbioanalysis/tests/testthat/test_methodsfile.R | 5 46 files changed, 1435 insertions(+), 970 deletions(-)
Title: Manipulation of Microsoft Word and PowerPoint Documents
Description: Access and manipulate 'Microsoft Word', 'RTF' and 'Microsoft
PowerPoint' documents from R. The package focuses on tabular and
graphical reporting from R; it also provides two functions that let
users get document content into data objects. A set of functions lets
add and remove images, tables and paragraphs of text in new or
existing documents. The package does not require any installation of
Microsoft products to be able to write Microsoft files.
Author: David Gohel [aut, cre],
Stefan Moog [aut],
Mark Heckmann [aut] ,
ArData [cph],
Frank Hangler [ctb] ,
Liz Sander [ctb] ,
Anton Victorson [ctb] ,
Jon Calder [ctb] ,
John Harrold [ctb] ,
John Muschelli [ctb] ,
Bill Denney [ctb] ,
Nikolai Beck [ctb] ,
Gr [...truncated...]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between officer versions 0.6.8 dated 2025-03-23 and 0.6.9 dated 2025-05-21
officer-0.6.8/officer/tests/testthat/test-get-layout-helper.R |only officer-0.6.9/officer/DESCRIPTION | 21 officer-0.6.9/officer/MD5 | 286 ++-- officer-0.6.9/officer/NAMESPACE | 8 officer-0.6.9/officer/NEWS.md | 54 officer-0.6.9/officer/R/deprecated.R |only officer-0.6.9/officer/R/docx_add.R | 72 - officer-0.6.9/officer/R/docx_append_context.R |only officer-0.6.9/officer/R/docx_cursor.R | 8 officer-0.6.9/officer/R/docx_replace.R | 30 officer-0.6.9/officer/R/docx_section.R | 357 +++-- officer-0.6.9/officer/R/empty_content.R | 2 officer-0.6.9/officer/R/formatting_properties.R | 485 +++++-- officer-0.6.9/officer/R/fortify_docx.R | 29 officer-0.6.9/officer/R/fortify_pptx.R | 2 officer-0.6.9/officer/R/ooxml.R | 63 officer-0.6.9/officer/R/ooxml_block_objects.R | 670 ++++++---- officer-0.6.9/officer/R/ooxml_run_objects.R | 511 +++++-- officer-0.6.9/officer/R/openxml_document.R | 4 officer-0.6.9/officer/R/ph_location.R | 26 officer-0.6.9/officer/R/post-proc.R | 124 - officer-0.6.9/officer/R/ppt_notes.R | 9 officer-0.6.9/officer/R/ppt_ph_manipulate.R | 18 officer-0.6.9/officer/R/ppt_ph_with_methods.R | 34 officer-0.6.9/officer/R/pptx_informations.R | 76 - officer-0.6.9/officer/R/pptx_layout_helper.R | 93 + officer-0.6.9/officer/R/pptx_matrix.R | 13 officer-0.6.9/officer/R/pptx_slide_manip.R | 66 officer-0.6.9/officer/R/read_docx.R | 118 + officer-0.6.9/officer/R/read_pptx.R | 61 officer-0.6.9/officer/R/rtf.R | 23 officer-0.6.9/officer/R/shape_properties.R | 56 officer-0.6.9/officer/R/shorcuts.R | 3 officer-0.6.9/officer/R/utils-xml.R |only officer-0.6.9/officer/R/utils.R | 103 + officer-0.6.9/officer/README.md | 7 officer-0.6.9/officer/inst/examples/example_add_slide.R | 12 officer-0.6.9/officer/inst/examples/example_layout_default.R |only officer-0.6.9/officer/man/add_slide.Rd | 27 officer-0.6.9/officer/man/annotate_base.Rd | 6 officer-0.6.9/officer/man/as.matrix.rpptx.Rd | 5 officer-0.6.9/officer/man/block_caption.Rd | 1 officer-0.6.9/officer/man/block_gg.Rd |only officer-0.6.9/officer/man/block_list.Rd | 3 officer-0.6.9/officer/man/block_pour_docx.Rd | 1 officer-0.6.9/officer/man/block_section.Rd | 1 officer-0.6.9/officer/man/block_table.Rd | 1 officer-0.6.9/officer/man/block_toc.Rd | 1 officer-0.6.9/officer/man/body_add.Rd | 9 officer-0.6.9/officer/man/body_add_blocks.Rd | 5 officer-0.6.9/officer/man/body_add_break.Rd | 3 officer-0.6.9/officer/man/body_add_caption.Rd | 3 officer-0.6.9/officer/man/body_add_docx.Rd | 3 officer-0.6.9/officer/man/body_add_fpar.Rd | 7 officer-0.6.9/officer/man/body_add_gg.Rd | 3 officer-0.6.9/officer/man/body_add_img.Rd | 3 officer-0.6.9/officer/man/body_add_par.Rd | 3 officer-0.6.9/officer/man/body_add_plot.Rd | 3 officer-0.6.9/officer/man/body_add_table.Rd | 3 officer-0.6.9/officer/man/body_add_toc.Rd | 3 officer-0.6.9/officer/man/body_append_context.Rd |only officer-0.6.9/officer/man/body_end_section_columns_landscape.Rd | 4 officer-0.6.9/officer/man/body_end_section_landscape.Rd | 2 officer-0.6.9/officer/man/body_end_section_portrait.Rd | 2 officer-0.6.9/officer/man/body_replace_all_text.Rd | 8 officer-0.6.9/officer/man/docx_reference_img.Rd | 2 officer-0.6.9/officer/man/docx_show_chunk.Rd | 4 officer-0.6.9/officer/man/docx_summary.Rd | 4 officer-0.6.9/officer/man/empty_content.Rd | 2 officer-0.6.9/officer/man/external_img.Rd | 2 officer-0.6.9/officer/man/fortify_location.Rd | 2 officer-0.6.9/officer/man/fp_cell.Rd | 2 officer-0.6.9/officer/man/fp_par.Rd | 26 officer-0.6.9/officer/man/fp_text.Rd | 4 officer-0.6.9/officer/man/fpar.Rd | 3 officer-0.6.9/officer/man/get_layout.Rd | 12 officer-0.6.9/officer/man/layout_default.Rd |only officer-0.6.9/officer/man/length.rpptx.Rd | 4 officer-0.6.9/officer/man/move_slide.Rd | 4 officer-0.6.9/officer/man/officer.Rd | 1 officer-0.6.9/officer/man/on_slide.Rd | 6 officer-0.6.9/officer/man/page_mar.Rd | 42 officer-0.6.9/officer/man/page_size.Rd | 7 officer-0.6.9/officer/man/ph_hyperlink.Rd | 8 officer-0.6.9/officer/man/ph_location.Rd | 6 officer-0.6.9/officer/man/ph_location_fullsize.Rd | 2 officer-0.6.9/officer/man/ph_location_label.Rd | 2 officer-0.6.9/officer/man/ph_location_left.Rd | 2 officer-0.6.9/officer/man/ph_location_right.Rd | 2 officer-0.6.9/officer/man/ph_location_template.Rd | 4 officer-0.6.9/officer/man/ph_location_type.Rd | 4 officer-0.6.9/officer/man/ph_remove.Rd | 6 officer-0.6.9/officer/man/ph_slidelink.Rd | 10 officer-0.6.9/officer/man/ph_with.Rd | 34 officer-0.6.9/officer/man/plot_instr.Rd | 3 officer-0.6.9/officer/man/plot_layout_properties.Rd | 11 officer-0.6.9/officer/man/pptx_summary.Rd | 2 officer-0.6.9/officer/man/print.rpptx.Rd | 19 officer-0.6.9/officer/man/prop_section.Rd | 23 officer-0.6.9/officer/man/read_docx.Rd | 13 officer-0.6.9/officer/man/remove_slide.Rd | 2 officer-0.6.9/officer/man/set_notes.Rd | 6 officer-0.6.9/officer/man/shortcuts.Rd | 3 officer-0.6.9/officer/man/slide_summary.Rd | 6 officer-0.6.9/officer/man/sp_lineend.Rd | 2 officer-0.6.9/officer/man/unordered_list.Rd | 3 officer-0.6.9/officer/tests/testthat/docs_dir/test-layout-unique-and-dupe.pptx |only officer-0.6.9/officer/tests/testthat/test-alt-text.R | 19 officer-0.6.9/officer/tests/testthat/test-doc-summary.R | 124 + officer-0.6.9/officer/tests/testthat/test-docx-add.R | 238 ++- officer-0.6.9/officer/tests/testthat/test-docx-comments.R | 39 officer-0.6.9/officer/tests/testthat/test-docx-footnotes.R | 10 officer-0.6.9/officer/tests/testthat/test-docx-insert.R | 9 officer-0.6.9/officer/tests/testthat/test-docx-misc.R | 44 officer-0.6.9/officer/tests/testthat/test-docx-replace.R | 83 - officer-0.6.9/officer/tests/testthat/test-docx-styles.R | 35 officer-0.6.9/officer/tests/testthat/test-docx-table.R | 49 officer-0.6.9/officer/tests/testthat/test-fp-text-misc.R | 6 officer-0.6.9/officer/tests/testthat/test-fp-text.R | 126 + officer-0.6.9/officer/tests/testthat/test-fp_border.R | 61 officer-0.6.9/officer/tests/testthat/test-fp_cell.R | 57 officer-0.6.9/officer/tests/testthat/test-fp_par.R | 99 - officer-0.6.9/officer/tests/testthat/test-fpar.R | 47 officer-0.6.9/officer/tests/testthat/test-hyperlinks.R | 7 officer-0.6.9/officer/tests/testthat/test-images.R | 43 officer-0.6.9/officer/tests/testthat/test-knitr-utils.R | 116 + officer-0.6.9/officer/tests/testthat/test-layout-helper.R |only officer-0.6.9/officer/tests/testthat/test-pptx-add-geom-ln.R | 174 ++ officer-0.6.9/officer/tests/testthat/test-pptx-add.R | 183 ++ officer-0.6.9/officer/tests/testthat/test-pptx-dedupe-ph-labels.R | 31 officer-0.6.9/officer/tests/testthat/test-pptx-info.R | 186 ++ officer-0.6.9/officer/tests/testthat/test-pptx-matrix.R | 131 + officer-0.6.9/officer/tests/testthat/test-pptx-misc.R | 81 + officer-0.6.9/officer/tests/testthat/test-pptx-move.R | 8 officer-0.6.9/officer/tests/testthat/test-pptx-notes.R | 73 - officer-0.6.9/officer/tests/testthat/test-pptx-ph-location.R | 309 +++- officer-0.6.9/officer/tests/testthat/test-pptx-rename-ph-labels.R | 125 + officer-0.6.9/officer/tests/testthat/test-pptx-selections.R | 17 officer-0.6.9/officer/tests/testthat/test-pptx-table.R | 23 officer-0.6.9/officer/tests/testthat/test-properties.R | 145 +- officer-0.6.9/officer/tests/testthat/test-relationships.R | 34 officer-0.6.9/officer/tests/testthat/test-rtf-add.R | 76 - officer-0.6.9/officer/tests/testthat/test-sections.R | 147 +- officer-0.6.9/officer/tests/testthat/test-to_rtf.R | 33 officer-0.6.9/officer/tests/testthat/test-utils.R | 110 + officer-0.6.9/officer/tests/testthat/test-wml-chunks.R | 56 officer-0.6.9/officer/tests/testthat/test-xlsx-misc.R | 3 officer-0.6.9/officer/tests/testthat/test-xlsx.R | 8 officer-0.6.9/officer/tests/testthat/test-zip.R | 1 149 files changed, 4810 insertions(+), 2210 deletions(-)
Title: Automating Choosing Statistical Tests
Description: Automatically selects and runs the most appropriate statistical test for your data, returning clear, easy-to-read results. Ideal for all experience levels.
Author: Wouter Zeevat [aut, cre]
Maintainer: Wouter Zeevat <wouterzeevat@gmail.com>
Diff between automatedtests versions 0.1.0 dated 2025-05-05 and 0.1.1 dated 2025-05-21
DESCRIPTION | 12 MD5 | 30 + NAMESPACE | 5 NEWS.md | 8 R/class-AutomatedTest.R | 58 +++ R/test-picker.R | 30 + R/utils.R | 126 +++++++- README.md | 65 +++- build/vignette.rds |binary inst/doc/automatical_test_vignette.R | 2 inst/doc/automatical_test_vignette.Rmd | 26 + inst/doc/automatical_test_vignette.html | 116 ++++++- man/AutomatedTest.Rd | 484 ++++++++++++++++---------------- man/automatical_test.Rd | 22 + man/figures |only man/get_strength_from_test.Rd |only vignettes/automatical_test_vignette.Rmd | 26 + 17 files changed, 696 insertions(+), 314 deletions(-)
More information about automatedtests at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2007-04-04 0.0-4.2
Title: Alocă Pe Ore Lecțiile Zilei
Description: Lecțiile prof/cls trebuie completate cu un câmp "ora", astfel ca
oricare două lecții prof/cls/ora să nu se suprapună într-o aceeași oră.
The prof/cls lessons must be completed with a "hour" field ('ora), so that
any two prof/cls/ora lessons do not overlap in the same hour.
<https://vlad.bazon.net/>.
Author: Vlad Bazon [aut, cre]
Maintainer: Vlad Bazon <vlad.bazon@gmail.com>
Diff between hours2lessons versions 0.1.3 dated 2025-04-23 and 0.1.4 dated 2025-05-21
hours2lessons-0.1.3/hours2lessons/tests |only hours2lessons-0.1.4/hours2lessons/DESCRIPTION | 11 hours2lessons-0.1.4/hours2lessons/MD5 | 41 hours2lessons-0.1.4/hours2lessons/NAMESPACE | 1 hours2lessons-0.1.4/hours2lessons/NEWS.md |only hours2lessons-0.1.4/hours2lessons/R/data.R | 21 hours2lessons-0.1.4/hours2lessons/R/get_twins.R | 4 hours2lessons-0.1.4/hours2lessons/R/hlp.R |only hours2lessons-0.1.4/hours2lessons/R/long2matrix.R | 26 hours2lessons-0.1.4/hours2lessons/R/mount_hours.R | 32 hours2lessons-0.1.4/hours2lessons/R/on_tuples.R | 10 hours2lessons-0.1.4/hours2lessons/R/scale_prof_cls.R | 5 hours2lessons-0.1.4/hours2lessons/inst/doc/orarul-zilei.Rmd | 4 hours2lessons-0.1.4/hours2lessons/inst/doc/orarul-zilei.html | 691 +++++++---- hours2lessons-0.1.4/hours2lessons/man/LSS.Rd | 7 hours2lessons-0.1.4/hours2lessons/man/Tuplaje.Rd | 11 hours2lessons-0.1.4/hours2lessons/man/get_twins.Rd | 3 hours2lessons-0.1.4/hours2lessons/man/long2matrix.Rd | 10 hours2lessons-0.1.4/hours2lessons/man/mount_hours.Rd | 11 hours2lessons-0.1.4/hours2lessons/man/on_tuples.Rd | 12 hours2lessons-0.1.4/hours2lessons/man/scale_prof_cls.Rd | 4 hours2lessons-0.1.4/hours2lessons/man/verify_matrix.Rd |only hours2lessons-0.1.4/hours2lessons/vignettes/orarul-zilei.Rmd | 4 23 files changed, 636 insertions(+), 272 deletions(-)
Title: Group Iterative Multiple Model Estimation
Description: Data-driven approach for arriving at person-specific time series models. The method first identifies which relations replicate across the majority of individuals to detect signal from noise. These group-level relations are then used as a foundation for starting the search for person-specific (or individual-level) relations. See Gates & Molenaar (2012) <doi:10.1016/j.neuroimage.2012.06.026>.
Author: Stephanie Lane [aut, trl],
Kathleen M Gates [aut, cre, ccp],
Zachary Fisher [aut],
Cara Arizmendi [aut],
Peter Molenaar [aut, ccp],
Edgar Merkle [ctb],
Michael Hallquist [ctb],
Hallie Pike [ctb],
Teague Henry [ctb],
Kelly Duffy [ctb],
Lan Luo [ctb],
[...truncated...]
Maintainer: Kathleen M Gates <gateskm@email.unc.edu>
Diff between gimme versions 0.8 dated 2025-04-29 and 0.8.1 dated 2025-05-21
DESCRIPTION | 14 +++++++------- MD5 | 14 +++++++------- R/count.excellent.R | 8 ++++---- R/gimme.R | 5 ++--- R/setup.R | 1 + R/subgroupStage.R | 3 +-- inst/doc/gimme_vignette.html | 4 ++-- man/subgroupStage.Rd | 1 - 8 files changed, 24 insertions(+), 26 deletions(-)
Title: Data Management of Large Hierarchical Data
Description: Import 'SPSS' data, handle and change 'SPSS' meta data, store and access large hierarchical data in 'SQLite' data bases.
Author: Benjamin Becker [aut, cre],
Karoline Sachse [ctb],
Johanna Busse [ctb]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>
Diff between eatGADS versions 1.1.1 dated 2024-10-09 and 1.2.0 dated 2025-05-21
DESCRIPTION | 10 +- MD5 | 113 +++++++++++++-------------- NAMESPACE | 4 NEWS.md | 25 +++++ R/applyChangeMeta.R | 68 ++++++++++------ R/changeMissings.R | 85 +++++++++++--------- R/changeSPSSformat.R | 26 ++++-- R/changeValLabels.R | 79 ++++++++++-------- R/changeVarLabels.R | 40 +++++---- R/checkValLabels.R | 18 +++- R/checkVarNames.R | 37 ++++++-- R/check_functions.R | 1 R/dropDuplicateIDs.R |only R/equalGADS.R | 79 +++++++++++++----- R/extractData2.R | 41 ++++++--- R/inspectMetaDifferences.R | 22 +---- R/merge.R | 61 ++++++++++++-- R/prepare_labels.R | 15 --- R/recodeGADS.R | 76 ++++++++++-------- R/removeValLabels.R | 17 +--- R/write_spss2.R | 6 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/createGADS.html | 4 inst/doc/data_cleaning.R | 22 ++--- inst/doc/data_cleaning.html | 4 inst/doc/getGADS.html | 6 - inst/doc/import_raw.R | 24 ++--- inst/doc/import_raw.html | 4 inst/doc/import_spss.html | 4 inst/doc/recoding_forcedChoice.R | 10 +- inst/doc/recoding_forcedChoice.html | 4 inst/doc/recoding_multipleChoice.R | 20 ++-- inst/doc/recoding_multipleChoice.html | 4 man/changeMissings.Rd | 17 ++-- man/changeSPSSformat.Rd | 19 +++- man/changeValLabels.Rd | 21 +++-- man/changeVarLabels.Rd | 19 ++-- man/checkUniqueness2.Rd | 82 +++++++++---------- man/checkVarNames.Rd | 19 +++- man/dropDuplicateIDs.Rd |only man/equalGADS.Rd | 23 ++++- man/fixEncoding.Rd | 68 ++++++++-------- man/merge.GADSdat.Rd | 22 ++++- man/recodeGADS.Rd | 10 +- man/removeValLabels.Rd | 7 - tests/testthat/test_applyChangeMeta.R | 37 +++++++- tests/testthat/test_changeMissings.R | 63 +++++++++++---- tests/testthat/test_changeValLabels.R | 27 ++++-- tests/testthat/test_checkValLabels.R | 25 +++++ tests/testthat/test_checkVarNames.R | 17 ++-- tests/testthat/test_dropDuplicateIDs.R |only tests/testthat/test_equalGADS.R | 40 ++++++++- tests/testthat/test_extractData.R | 15 --- tests/testthat/test_extractData2.R | 67 ++++++++++++---- tests/testthat/test_inspectMetaDifferences.R | 23 ++++- tests/testthat/test_merge.R | 74 ++++++++++++----- tests/testthat/test_recodeGADS.R | 62 ++++++++------ tests/testthat/test_removeValLabels.R | 2 59 files changed, 1091 insertions(+), 597 deletions(-)
Title: Power Analyses using Monte Carlo Simulations
Description: Provides a general purpose simulation-based power analysis
API for routine and customized simulation experimental designs.
The package focuses exclusively on Monte Carlo simulation variants of
(expected) prospective power analyses,
criterion analyses, compromise analyses, sensitivity analyses, and
a priori analyses. The default simulation experiment functions found within the package
provide stochastic variants of the power analyses subroutines found in the
G*Power 3.1 software (Faul, Erdfelder, Buchner, and Lang, 2009) <doi:10.3758/brm.41.4.1149>,
along with various other parametric and non-parametric power analysis
examples (e.g., mediation analyses). Supporting functions are also included,
such as for building empirical power curve estimates,
which utilize a similar API structure.
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between Spower versions 0.2.2 dated 2025-03-25 and 0.2.3 dated 2025-05-21
DESCRIPTION | 20 - MD5 | 24 +- NAMESPACE | 2 R/Spower.R | 76 ++++++ R/p_glm.R | 30 ++ R/util.R | 62 +++++ README.md | 3 inst/doc/gpower_examples.Rmd | 482 ++++++++++++++++++++++++++++-------------- inst/doc/gpower_examples.html | 340 +++++++++++++++++++---------- man/Spower.Rd | 72 ++++++ man/is.CI_within.Rd |only man/is.outside_CI.Rd |only man/p_glm.Rd | 26 ++ vignettes/gpower_examples.Rmd | 482 ++++++++++++++++++++++++++++-------------- 14 files changed, 1146 insertions(+), 473 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
Doug Bates [aut] ,
Binxiang Ni [aut],
Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 14.4.2-1 dated 2025-04-25 and 14.4.3-1 dated 2025-05-21
ChangeLog | 9 + DESCRIPTION | 17 +-- MD5 | 38 +++---- configure | 18 +-- configure.ac | 2 inst/NEWS.Rd | 14 ++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo_bits/MapMat_meat.hpp | 80 ++++++---------- inst/include/armadillo_bits/SpMat_meat.hpp | 37 +++---- inst/include/armadillo_bits/SpSubview_col_list_meat.hpp | 2 inst/include/armadillo_bits/SpSubview_meat.hpp | 2 inst/include/armadillo_bits/SpValProxy_meat.hpp | 55 ++--------- inst/include/armadillo_bits/arma_version.hpp | 2 inst/include/armadillo_bits/compiler_setup.hpp | 12 ++ inst/include/armadillo_bits/fn_accu.hpp | 6 + inst/include/armadillo_bits/fn_misc.hpp | 10 +- inst/include/armadillo_bits/spdiagview_meat.hpp | 2 inst/include/armadillo_bits/spglue_schur_meat.hpp | 37 +++++-- inst/include/armadillo_bits/spop_misc_meat.hpp | 25 ----- 20 files changed, 172 insertions(+), 196 deletions(-)
Title: Group Sequential Design
Description: Derives group sequential clinical trial designs and describes
their properties. Particular focus on time-to-event, binary, and
continuous outcomes. Largely based on methods described in
Jennison, Christopher and Turnbull, Bruce W., 2000,
"Group Sequential Methods with Applications to Clinical Trials"
ISBN: 0-8493-0316-8.
Author: Keaven Anderson [aut, cre],
Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph]
Maintainer: Keaven Anderson <keaven_anderson@merck.com>
Diff between gsDesign versions 3.6.7 dated 2025-03-03 and 3.6.8 dated 2025-05-21
DESCRIPTION | 12 MD5 | 105 ++-- NEWS.md | 24 R/gsBinomial.R | 48 - R/gsMethods.R | 13 R/gsSurv.R | 4 R/nEvents.R | 8 R/nNormal.R | 12 R/ssrCP.R | 14 R/xtable.R | 2 build/vignette.rds |binary inst/doc/ConditionalErrorSpending.R | 1 inst/doc/ConditionalErrorSpending.Rmd | 1 inst/doc/ConditionalErrorSpending.html | 330 ++++++------- inst/doc/ConditionalPowerPlot.R | 1 inst/doc/ConditionalPowerPlot.Rmd | 1 inst/doc/GentleIntroductionToGSD.R | 1 inst/doc/GentleIntroductionToGSD.Rmd | 1 inst/doc/PoissonMixtureModel.R | 1 inst/doc/PoissonMixtureModel.Rmd | 1 inst/doc/PoissonMixtureModel.html | 110 ++-- inst/doc/SpendingFunctionOverview.R | 1 inst/doc/SpendingFunctionOverview.Rmd | 1 inst/doc/SurvivalOverview.R | 1 inst/doc/SurvivalOverview.Rmd | 1 inst/doc/VaccineEfficacy.R | 1 inst/doc/VaccineEfficacy.Rmd | 1 inst/doc/VaccineEfficacy.html | 440 +++++++++--------- inst/doc/binomialSPRTExample.R | 1 inst/doc/binomialSPRTExample.Rmd | 1 inst/doc/binomialSPRTExample.html | 220 ++++----- inst/doc/gsDesignPackageOverview.R | 1 inst/doc/gsDesignPackageOverview.Rmd | 1 inst/doc/gsSurvBasicExamples.R | 1 inst/doc/gsSurvBasicExamples.Rmd | 1 inst/doc/gsSurvBasicExamples.html | 330 ++++++------- inst/doc/nNormal.R | 1 inst/doc/nNormal.Rmd | 1 inst/doc/nNormal.html | 2 man/gsDesign-package.Rd | 2 man/ssrCP.Rd | 14 tests/testthat/test-independent-test-as_gt.R |only tests/testthat/test-independent-test-gsBoundSummary.R | 88 +++ vignettes/ConditionalErrorSpending.Rmd | 1 vignettes/ConditionalPowerPlot.Rmd | 1 vignettes/GentleIntroductionToGSD.Rmd | 1 vignettes/PoissonMixtureModel.Rmd | 1 vignettes/SpendingFunctionOverview.Rmd | 1 vignettes/SurvivalOverview.Rmd | 1 vignettes/VaccineEfficacy.Rmd | 1 vignettes/binomialSPRTExample.Rmd | 1 vignettes/gsDesignPackageOverview.Rmd | 1 vignettes/gsSurvBasicExamples.Rmd | 1 vignettes/nNormal.Rmd | 1 54 files changed, 973 insertions(+), 838 deletions(-)
Title: Descriptive Statistical Analysis
Description: Description of statistical associations between variables : measures of local and global association between variables (phi, Cramér V, correlations, eta-squared, Goodman and Kruskal tau, permutation tests, etc.), multiple graphical representations of the associations between variables (using 'ggplot2') and weighted statistics.
Author: Nicolas Robette [aut, cre]
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>
Diff between descriptio versions 1.3 dated 2024-03-07 and 1.4 dated 2025-05-21
DESCRIPTION | 18 ++++--- MD5 | 106 +++++++++++++++++++++++++-------------------- NAMESPACE | 6 +- NEWS.md | 26 ++++++++++- R/assoc.catcont.R | 2 R/assoc.catcont.by.R | 2 R/assoc.twocat.R | 16 +++++- R/assoc.twocat.by.R | 2 R/assoc.xx.R | 2 R/assoc.yx.R | 2 R/catdesc.R | 2 R/cattab.R |only R/condesc.R | 2 R/contab.R |only R/crosstab.R |only R/darma.R | 2 R/ggassoc_assocplot.R | 2 R/ggassoc_bertin.R | 2 R/ggassoc_boxplot.R | 2 R/ggassoc_chiasmogram.R | 2 R/ggassoc_crosstab.R | 2 R/ggassoc_marimekko.R | 2 R/ggassoc_phiplot.R | 2 R/or.table.R | 9 --- R/pem.table.R | 18 ++++--- R/phi.table.R | 36 +++++++-------- R/profiles.R | 23 --------- R/regtab.R |only R/stdres.table.R |only R/utils.R | 4 - R/weighted.cramer.R |only R/weighted.table.R | 37 +++------------ README.md | 29 +++++++----- inst/CITATION | 12 ++--- man/assoc.catcont.Rd | 4 - man/assoc.catcont.by.Rd | 4 - man/assoc.twocat.Rd | 7 +- man/assoc.twocat.by.Rd | 4 - man/assoc.xx.Rd | 4 - man/assoc.yx.Rd | 4 - man/catdesc.Rd | 4 - man/cattab.Rd |only man/condesc.Rd | 4 - man/contab.Rd |only man/crosstab.Rd |only man/darma.Rd | 4 - man/ggassoc_assocplot.Rd | 4 - man/ggassoc_bertin.Rd | 4 - man/ggassoc_boxplot.Rd | 4 - man/ggassoc_chiasmogram.Rd | 4 - man/ggassoc_crosstab.Rd | 4 - man/ggassoc_marimekko.Rd | 4 - man/ggassoc_phiplot.Rd | 4 - man/or.table.Rd | 4 - man/pem.table.Rd | 6 +- man/phi.table.Rd | 12 +++-- man/regtab.Rd |only man/stdres.table.Rd |only man/weighted.cramer.Rd |only man/weighted.table.Rd | 4 - 60 files changed, 239 insertions(+), 224 deletions(-)
Title: Algorithmic Complexity for Short Strings
Description: Main functionality is to provide the algorithmic complexity for
short strings, an approximation of the Kolmogorov Complexity of a short
string using the coding theorem method (see ?acss). The database containing
the complexity is provided in the data only package acss.data, this package
provides functions accessing the data such as prob_random returning the
posterior probability that a given string was produced by a random process.
In addition, two traditional (but problematic) measures of complexity are
also provided: entropy and change complexity.
Author: Nicolas Gauvrit [aut],
Henrik Singmann [aut, cre],
Fernando Soler Toscano [ctb],
Hector Zenil [ctb]
Maintainer: Henrik Singmann <singmann+acss@gmail.com>
Diff between acss versions 0.2-5 dated 2014-11-25 and 0.3-2 dated 2025-05-21
DESCRIPTION | 17 +- MD5 | 41 +++-- NAMESPACE | 31 +-- NEWS | 12 + R/acss.R | 287 +++++++++++++++++------------------ R/bdm.R |only build |only inst/CITATION | 33 ++-- inst/doc |only man/acss.Rd | 264 ++++++++++++++++---------------- man/bdm.Rd |only man/entropy.Rd | 94 +++++------ man/exp1.Rd | 82 +++++----- man/exp2.Rd | 86 +++++----- man/matthews2013.Rd | 104 ++++++------ man/normalize_string.Rd | 112 ++++++------- tests/testthat/test-acss.R | 2 tests/testthat/test-bdm.R |only tests/testthat/test-manuscript2014.R | 94 +++++------ vignettes |only 20 files changed, 648 insertions(+), 611 deletions(-)
Title: Genome-Wide Association Study with SNP-Set Methods
Description: By using 'RAINBOWR' (Reliable Association INference By Optimizing Weights with R), users can test multiple SNPs (Single Nucleotide Polymorphisms) simultaneously by kernel-based (SNP-set) methods. This package can also be applied to haplotype-based GWAS (Genome-Wide Association Study). Users can test not only additive effects but also dominance and epistatic effects. In detail, please check our paper on PLOS Computational Biology: Kosuke Hamazaki and Hiroyoshi Iwata (2020) <doi:10.1371/journal.pcbi.1007663>.
Author: Kosuke Hamazaki [aut, cre],
Hiroyoshi Iwata [aut, ctb]
Maintainer: Kosuke Hamazaki <hamazaki@ut-biomet.org>
Diff between RAINBOWR versions 0.1.35 dated 2024-03-03 and 0.1.38 dated 2025-05-21
DESCRIPTION | 12 MD5 | 70 ++-- NAMESPACE | 1 NEWS.md | 15 R/EMM_functions_cpp.R | 526 +++++++++++++++++++++++++++++++++++ R/RGWAS.epistasis.R | 2 R/RGWAS.multisnp.R | 2 R/RGWAS.multisnp.interaction.R | 2 R/RGWAS.normal.R | 2 R/RGWAS.normal.interaction.R | 2 R/RGWAS.twostep.R | 2 R/RGWAS.twostep.epi.R | 2 R/examples/EM3.cov_example.R |only R/functions_for_RGWAS.R | 85 ++++- R/other_useful_functions.R | 321 ++++++++++++++------- build/vignette.rds |binary inst/doc/RAINBOWR.html | 16 - man/EM3.cov.Rd |only man/RGWAS.epistasis.Rd | 2 man/RGWAS.multisnp.Rd | 2 man/RGWAS.multisnp.interaction.Rd | 2 man/RGWAS.normal.Rd | 2 man/RGWAS.normal.interaction.Rd | 2 man/RGWAS.twostep.Rd | 2 man/RGWAS.twostep.epi.Rd | 2 man/calcGRM.Rd | 11 man/convertBlockList.Rd | 2 man/estNetwork.Rd | 2 man/estPhylo.Rd | 2 man/parallel.compute.Rd | 2 man/score.calc.LR.MC.Rd | 2 man/score.calc.LR.int.MC.Rd | 2 man/score.calc.MC.Rd | 2 man/score.calc.epistasis.LR.MC.Rd | 2 man/score.calc.epistasis.score.MC.Rd | 2 man/score.calc.int.MC.Rd | 2 man/score.calc.score.MC.Rd | 2 37 files changed, 915 insertions(+), 192 deletions(-)
Title: Tools for Post-Processing Predicted Values
Description: Models can be improved by post-processing class
probabilities, by: recalibration, conversion to hard probabilities,
assessment of equivocal zones, and other activities. 'probably'
contains tools for conducting these operations as well as calibration
tools and conformal inference techniques for regression models.
Author: Max Kuhn [aut, cre],
Davis Vaughan [aut],
Edgar Ruiz [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between probably versions 1.0.3 dated 2024-02-22 and 1.1.0 dated 2025-05-21
DESCRIPTION | 32 - MD5 | 175 +++--- NAMESPACE | 31 + NEWS.md | 26 + R/bound_prediction.R |only R/cal-apply-binary.R | 36 - R/cal-apply-impl.R | 54 -- R/cal-apply-multi.R | 11 R/cal-apply-regression.R | 32 - R/cal-apply.R | 42 + R/cal-estimate-beta.R | 334 ++++++------- R/cal-estimate-isotonic.R | 402 +++++++-------- R/cal-estimate-linear.R | 194 +++---- R/cal-estimate-logistic.R | 244 ++++----- R/cal-estimate-multinom.R | 218 +++----- R/cal-estimate-none.R |only R/cal-estimate-utils.R | 289 ++++++++++- R/cal-pkg-check.R | 12 R/cal-plot-breaks.R | 25 R/cal-plot-logistic.R | 19 R/cal-plot-regression.R | 4 R/cal-plot-utils.R | 101 +-- R/cal-plot-windowed.R | 20 R/cal-utils.R | 35 - R/cal-validate.R | 166 +++++- R/class-pred.R | 17 R/conformal_infer.R | 40 - R/conformal_infer_cv.R | 111 ++-- R/conformal_infer_quantile.R | 12 R/conformal_infer_split.R | 12 R/import-standalone-obj-type.R |only R/import-standalone-types-check.R |only R/make_class_pred.R | 6 R/probably-package.R | 3 R/threshold_perf.R | 34 - R/utils.R | 3 README.md | 2 build/vignette.rds |binary inst/doc/equivocal-zones.R | 20 inst/doc/equivocal-zones.Rmd | 20 inst/doc/equivocal-zones.html | 26 - inst/doc/where-to-use.R | 44 + inst/doc/where-to-use.Rmd | 44 + inst/doc/where-to-use.html | 69 +- man/append_class_pred.Rd | 2 man/bound_prediction.Rd |only man/cal_estimate_beta.Rd | 8 man/cal_estimate_linear.Rd | 8 man/cal_estimate_multinomial.Rd | 10 man/cal_estimate_none.Rd |only man/cal_plot_breaks.Rd | 6 man/cal_validate_beta.Rd | 9 man/cal_validate_isotonic.Rd | 4 man/cal_validate_isotonic_boot.Rd | 4 man/cal_validate_linear.Rd | 4 man/cal_validate_logistic.Rd | 4 man/cal_validate_multinomial.Rd | 4 man/cal_validate_none.Rd |only man/int_conformal_cv.Rd | 8 man/int_conformal_full.Rd | 31 + man/int_conformal_quantile.Rd | 10 man/int_conformal_split.Rd | 10 man/make_class_pred.Rd | 4 man/probably-package.Rd | 6 man/required_pkgs.cal_object.Rd | 17 man/rmd/parallel_intervals.Rmd | 8 man/threshold_perf.Rd | 14 tests/testthat/_snaps/bound-prediction.md |only tests/testthat/_snaps/cal-estimate-beta.md |only tests/testthat/_snaps/cal-estimate-isotonic.md |only tests/testthat/_snaps/cal-estimate-linear.md |only tests/testthat/_snaps/cal-estimate-logistic.md |only tests/testthat/_snaps/cal-estimate-multinomial.md |only tests/testthat/_snaps/cal-estimate-none.md |only tests/testthat/_snaps/cal-estimate.md | 156 ++++-- tests/testthat/_snaps/cal-plot.md | 6 tests/testthat/_snaps/cal-validate.md | 11 tests/testthat/_snaps/conformal-intervals-quantile.md | 4 tests/testthat/_snaps/conformal-intervals-split.md | 6 tests/testthat/_snaps/conformal-intervals.md | 48 + tests/testthat/_snaps/threshold-perf.md | 22 tests/testthat/helper-cal.R | 44 - tests/testthat/test-bound-prediction.R |only tests/testthat/test-cal-apply.R | 20 tests/testthat/test-cal-estimate-beta.R |only tests/testthat/test-cal-estimate-isotonic.R |only tests/testthat/test-cal-estimate-linear.R |only tests/testthat/test-cal-estimate-logistic.R |only tests/testthat/test-cal-estimate-multinomial.R |only tests/testthat/test-cal-estimate-none.R |only tests/testthat/test-cal-estimate.R | 459 +++++++++++------- tests/testthat/test-cal-plot.R | 121 ++-- tests/testthat/test-cal-validate.R | 117 ++++ tests/testthat/test-conformal-intervals-quantile.R | 7 tests/testthat/test-conformal-intervals-split.R | 6 tests/testthat/test-conformal-intervals.R | 77 ++- tests/testthat/test-threshold-perf.R | 36 - vignettes/equivocal-zones.Rmd | 20 vignettes/where-to-use.Rmd | 44 + 99 files changed, 2614 insertions(+), 1726 deletions(-)
Title: Online Principal Component Regression for Online Datasets
Description: The online principal component regression method can process the online data set. 'OPCreg' implements the online principal component regression method, which is specifically designed to process online datasets efficiently. This method is particularly useful for handling large-scale, streaming data where traditional batch processing methods may be computationally infeasible.The philosophy of the package is described in 'Guo' (2025) <doi:10.1016/j.physa.2024.130308>.
Author: Guangbao Guo [aut, cre] ,
Chunjie Wei [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between OPCreg versions 0.3.0 dated 2025-05-08 and 1.0.0 dated 2025-05-21
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- data/concrete.rda |binary data/protein.rda |binary data/yacht_hydrodynamics.rda |binary 5 files changed, 8 insertions(+), 8 deletions(-)
Title: Graphs and Tables for OMOP Results
Description: Provides methods to transform omop_result objects into
formatted tables and figures, facilitating the visualisation of study
results working with the Observational Medical Outcomes Partnership
(OMOP) Common Data Model.
Author: Marti Catala [aut] ,
Nuria Mercade-Besora [aut, cre] ,
Yuchen Guo [ctb] ,
Elin Rowlands [ctb] ,
Marta Alcalde-Herraiz [ctb] ,
Edward Burn [ctb]
Maintainer: Nuria Mercade-Besora <nuria.mercadebesora@ndorms.ox.ac.uk>
Diff between visOmopResults versions 1.0.2 dated 2025-03-06 and 1.1.0 dated 2025-05-21
DESCRIPTION | 25 MD5 | 50 R/datatableInternal.R | 25 R/formatTable.R | 31 R/fxTable.R | 48 R/gtTable.R | 30 R/helperFunctions.R | 230 +- R/reactableInternal.R |only R/tableStyles.R |only R/utilities.R | 599 +++--- R/visOmopTable.R | 560 +++-- R/visTable.R | 414 ++-- inst/doc/a01_tables.R | 64 inst/doc/a01_tables.Rmd | 98 - inst/doc/a01_tables.html | 2757 ++++++++++++++++++----------- man/formatTable.Rd | 24 man/tableStyle.Rd | 4 man/visOmopTable.Rd | 22 man/visTable.Rd | 12 tests/testthat/_snaps/formatTable.md | 1552 ++++++++-------- tests/testthat/_snaps/reactableInternal.md |only tests/testthat/test-formatTable.R | 31 tests/testthat/test-fxTable.R | 12 tests/testthat/test-gtTable.R | 19 tests/testthat/test-helperFunctions.R | 109 + tests/testthat/test-reactableInternal.R |only tests/testthat/test-visOmopTable.R | 801 ++++---- vignettes/a01_tables.Rmd | 98 - 28 files changed, 4298 insertions(+), 3317 deletions(-)
More information about visOmopResults at CRAN
Permanent link
Title: Exploratory Data Analysis for the 'spatstat' Family
Description: Functionality for exploratory data analysis and nonparametric analysis of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Warick Brown [cph],
Achmad Choiruddin [ctb],
Ya-Mei Chang [ctb],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.explore versions 3.4-2 dated 2025-03-21 and 3.4-3 dated 2025-05-21
DESCRIPTION | 16 +-- MD5 | 28 +++--- NAMESPACE | 3 NEWS | 34 +++++++ R/density.ppp.R | 26 ++--- R/relrisk.R | 128 ++++++++++++++++++++++++---- R/smooth.ppp.R | 174 ++++++++++++++++++++++++++++++--------- inst/doc/packagesizes.txt | 2 inst/info/packagesizes.txt | 2 man/Smooth.ppp.Rd | 6 + man/bw.smoothppp.Rd | 23 ++++- man/relrisk.ppp.Rd | 43 ++++++++- man/spatstat.explore-internal.Rd | 9 +- tests/testsD.R | 32 +++++-- tests/testsGtoJ.R | 2 15 files changed, 413 insertions(+), 115 deletions(-)
More information about spatstat.explore at CRAN
Permanent link
Title: Preprocessing and Feature Engineering Steps for Modeling
Description: A recipe prepares your data for modeling. We provide an
extensible framework for pipeable sequences of feature engineering
steps provides preprocessing tools to be applied to data. Statistical
parameters for the steps can be estimated from an initial data set and
then applied to other data sets. The resulting processed output can
then be used as inputs for statistical or machine learning models.
Author: Max Kuhn [aut, cre],
Hadley Wickham [aut],
Emil Hvitfeldt [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between recipes versions 1.3.0 dated 2025-04-17 and 1.3.1 dated 2025-05-21
DESCRIPTION | 14 LICENSE | 2 MD5 | 950 ++++++++++++------------- NEWS.md | 54 - R/arrange.R | 22 R/bin2factor.R | 6 R/bs.R | 2 R/case_weights.R | 12 R/center.R | 2 R/class.R | 30 R/classdist.R | 6 R/classdist_shrunken.R | 142 +-- R/colcheck.R | 6 R/corr.R | 2 R/count.R | 4 R/cut.R | 32 R/date.R | 2 R/depth.R | 4 R/discretize.R | 2 R/dummy.R | 28 R/dummy_extract.R | 34 R/dummy_multi_choice.R | 8 R/extract_parameter.R | 2 R/factor2string.R | 6 R/filter.R | 20 R/filter_missing.R | 2 R/formula.R | 6 R/geodist.R | 8 R/harmonic.R | 22 R/holiday.R | 2 R/hyperbolic.R | 2 R/impute_bag.R | 4 R/impute_knn.R | 2 R/impute_linear.R | 12 R/impute_lower.R | 2 R/impute_mean.R | 2 R/impute_median.R | 2 R/impute_mode.R | 2 R/impute_roll.R | 6 R/indicate_na.R | 4 R/integer.R | 4 R/interact.R | 8 R/intercept.R | 4 R/inverse.R | 2 R/invlogit.R | 6 R/isomap.R | 6 R/kpca.R | 6 R/kpca_poly.R | 6 R/kpca_rbf.R | 6 R/lag.R | 6 R/lincomb.R | 2 R/log.R | 14 R/logit.R | 2 R/misc.R | 20 R/missing.R | 20 R/mutate.R | 40 - R/mutate_at.R | 16 R/naomit.R | 6 R/newvalues.R | 24 R/nnmf.R | 10 R/nnmf_sparse.R | 10 R/normalize.R | 6 R/novel.R | 2 R/ns.R | 2 R/num2factor.R | 18 R/nzv.R | 8 R/ordinalscore.R | 8 R/other.R | 10 R/pca.R | 8 R/percentile.R | 6 R/pls.R | 42 - R/poly.R | 4 R/poly_bernstein.R | 16 R/profile.R | 18 R/ptype.R | 10 R/range.R | 2 R/range_check.R | 18 R/ratio.R | 2 R/recipe.R | 76 +- R/regex.R | 4 R/relevel.R | 6 R/relu.R | 6 R/rename.R | 16 R/rename_at.R | 8 R/rm.R | 2 R/roles.R | 68 - R/sample.R | 26 R/scale.R | 2 R/select.R | 8 R/selections.R | 20 R/shuffle.R | 2 R/slice.R | 20 R/spatialsign.R | 8 R/spline_b.R | 14 R/spline_convex.R | 14 R/spline_monotone.R | 14 R/spline_natural.R | 14 R/spline_nonnegative.R | 14 R/sqrt.R | 2 R/string2factor.R | 6 R/tidy.R | 8 R/time.R | 4 R/tune_args.R | 3 R/unknown.R | 14 R/unorder.R | 2 R/update-role-requirements.R | 4 R/update.R | 2 R/window.R | 6 R/zv.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Dummies.R | 88 +- inst/doc/Dummies.Rmd | 106 +- inst/doc/Dummies.html | 60 - inst/doc/Roles.R | 88 +- inst/doc/Roles.Rmd | 95 +- inst/doc/Roles.html | 66 - inst/doc/Selecting_Variables.R | 28 inst/doc/Selecting_Variables.Rmd | 36 inst/doc/Selecting_Variables.html | 14 inst/doc/Skipping.R | 14 inst/doc/Skipping.Rmd | 17 inst/doc/Skipping.html | 10 inst/doc/recipes.R | 42 - inst/doc/recipes.Rmd | 62 + inst/doc/recipes.html | 12 inst/old-get_types.R | 6 inst/pls_test_references.R | 64 - man/bake.Rd | 12 man/check_class.Rd | 30 man/check_cols.Rd | 6 man/check_missing.Rd | 20 man/check_new_values.Rd | 24 man/check_range.Rd | 18 man/detect_step.Rd | 2 man/formula.recipe.Rd | 6 man/fully_trained.Rd | 8 man/has_role.Rd | 14 man/prep.Rd | 8 man/recipe.Rd | 38 - man/recipes.Rd | 2 man/recipes_ptype.Rd | 10 man/rmd/non-standard-roles.Rmd | 22 man/rmd/num_comp.Rmd | 3 man/rmd/recipes.Rmd | 24 man/rmd/selections.Rmd | 23 man/rmd/tunable-args.Rmd | 16 man/roles.Rd | 50 - man/selections.Rd | 20 man/step_arrange.Rd | 22 man/step_bin2factor.Rd | 6 man/step_bs.Rd | 2 man/step_center.Rd | 2 man/step_classdist.Rd | 4 man/step_classdist_shrunken.Rd | 4 man/step_corr.Rd | 2 man/step_count.Rd | 4 man/step_cut.Rd | 32 man/step_date.Rd | 2 man/step_depth.Rd | 4 man/step_discretize.Rd | 2 man/step_dummy.Rd | 26 man/step_dummy_extract.Rd | 26 man/step_dummy_multi_choice.Rd | 8 man/step_factor2string.Rd | 6 man/step_filter.Rd | 20 man/step_filter_missing.Rd | 2 man/step_geodist.Rd | 8 man/step_harmonic.Rd | 22 man/step_holiday.Rd | 2 man/step_hyperbolic.Rd | 2 man/step_impute_bag.Rd | 4 man/step_impute_knn.Rd | 2 man/step_impute_linear.Rd | 12 man/step_impute_lower.Rd | 2 man/step_impute_mean.Rd | 2 man/step_impute_median.Rd | 2 man/step_impute_mode.Rd | 2 man/step_impute_roll.Rd | 6 man/step_indicate_na.Rd | 2 man/step_integer.Rd | 4 man/step_interact.Rd | 8 man/step_intercept.Rd | 4 man/step_inverse.Rd | 2 man/step_invlogit.Rd | 6 man/step_isomap.Rd | 6 man/step_kpca.Rd | 6 man/step_kpca_poly.Rd | 6 man/step_kpca_rbf.Rd | 6 man/step_lag.Rd | 6 man/step_lincomb.Rd | 2 man/step_log.Rd | 14 man/step_logit.Rd | 2 man/step_mutate.Rd | 40 - man/step_mutate_at.Rd | 16 man/step_naomit.Rd | 6 man/step_nnmf.Rd | 10 man/step_nnmf_sparse.Rd | 10 man/step_normalize.Rd | 6 man/step_novel.Rd | 2 man/step_ns.Rd | 2 man/step_num2factor.Rd | 18 man/step_nzv.Rd | 2 man/step_ordinalscore.Rd | 8 man/step_other.Rd | 8 man/step_pca.Rd | 8 man/step_percentile.Rd | 4 man/step_pls.Rd | 24 man/step_poly.Rd | 2 man/step_poly_bernstein.Rd | 14 man/step_profile.Rd | 18 man/step_range.Rd | 2 man/step_ratio.Rd | 2 man/step_regex.Rd | 4 man/step_relevel.Rd | 6 man/step_relu.Rd | 6 man/step_rename.Rd | 16 man/step_rename_at.Rd | 8 man/step_rm.Rd | 2 man/step_sample.Rd | 26 man/step_scale.Rd | 2 man/step_select.Rd | 8 man/step_shuffle.Rd | 2 man/step_slice.Rd | 20 man/step_spatialsign.Rd | 8 man/step_spline_b.Rd | 14 man/step_spline_convex.Rd | 14 man/step_spline_monotone.Rd | 14 man/step_spline_natural.Rd | 14 man/step_spline_nonnegative.Rd | 14 man/step_sqrt.Rd | 2 man/step_string2factor.Rd | 6 man/step_time.Rd | 2 man/step_unknown.Rd | 14 man/step_unorder.Rd | 2 man/step_window.Rd | 6 man/step_zv.Rd | 2 man/tidy.recipe.Rd | 8 man/update.step.Rd | 2 man/update_role_requirements.Rd | 4 tests/testthat/_snaps/BoxCox.md | 6 tests/testthat/_snaps/R4.2/discretize.md | 4 tests/testthat/_snaps/R4.3/discretize.md | 4 tests/testthat/_snaps/R4.4/discretize.md | 4 tests/testthat/_snaps/R4.5 |only tests/testthat/_snaps/YeoJohnson.md | 9 tests/testthat/_snaps/basics.md | 34 tests/testthat/_snaps/bin2factor.md | 7 tests/testthat/_snaps/bs.md | 2 tests/testthat/_snaps/case-weight-functions.md | 2 tests/testthat/_snaps/class.md | 4 tests/testthat/_snaps/classdist.md | 18 tests/testthat/_snaps/classdist_shrunken.md | 19 tests/testthat/_snaps/colcheck.md | 10 tests/testthat/_snaps/corr.md | 9 tests/testthat/_snaps/count.md | 19 tests/testthat/_snaps/cut.md | 16 tests/testthat/_snaps/date.md | 23 tests/testthat/_snaps/deprec-impute_bag.md | 2 tests/testthat/_snaps/deprec-impute_knn.md | 2 tests/testthat/_snaps/deprec-impute_lower.md | 2 tests/testthat/_snaps/deprec-impute_median.md | 2 tests/testthat/_snaps/deprec-impute_mena.md | 2 tests/testthat/_snaps/deprec-impute_mode.md | 2 tests/testthat/_snaps/deprec-impute_roll.md | 2 tests/testthat/_snaps/depth.md | 14 tests/testthat/_snaps/discretize.md | 19 tests/testthat/_snaps/dummy.md | 34 tests/testthat/_snaps/dummy_extract.md | 22 tests/testthat/_snaps/dummy_multi_choice.md | 8 tests/testthat/_snaps/factor2string.md | 4 tests/testthat/_snaps/filter_missing.md | 4 tests/testthat/_snaps/geodist.md | 70 - tests/testthat/_snaps/harmonic.md | 39 - tests/testthat/_snaps/holiday.md | 3 tests/testthat/_snaps/hyperbolic.md | 4 tests/testthat/_snaps/ica.md | 7 tests/testthat/_snaps/impute_bag.md | 21 tests/testthat/_snaps/impute_knn.md | 23 tests/testthat/_snaps/impute_linear.md | 17 tests/testthat/_snaps/impute_lower.md | 2 tests/testthat/_snaps/impute_mean.md | 3 tests/testthat/_snaps/impute_roll.md | 23 tests/testthat/_snaps/integer.md | 7 tests/testthat/_snaps/interact.md | 10 tests/testthat/_snaps/intercept.md | 6 tests/testthat/_snaps/inverse.md | 4 tests/testthat/_snaps/isomap.md | 17 tests/testthat/_snaps/kpca.md | 14 tests/testthat/_snaps/kpca_poly.md | 22 tests/testthat/_snaps/kpca_rbf.md | 12 tests/testthat/_snaps/lag.md | 4 tests/testthat/_snaps/lincomb.md | 2 tests/testthat/_snaps/log.md | 6 tests/testthat/_snaps/logit.md | 2 tests/testthat/_snaps/misc.md | 13 tests/testthat/_snaps/mutate.md | 4 tests/testthat/_snaps/mutate_at.md | 4 tests/testthat/_snaps/newvalues.md | 23 tests/testthat/_snaps/nnmf_sparse.md | 14 tests/testthat/_snaps/nomial_types.md | 2 tests/testthat/_snaps/normalize.md | 7 tests/testthat/_snaps/novel.md | 6 tests/testthat/_snaps/ns.md | 2 tests/testthat/_snaps/num2factor.md | 6 tests/testthat/_snaps/nzv.md | 13 tests/testthat/_snaps/ordinalscore.md | 3 tests/testthat/_snaps/other.md | 4 tests/testthat/_snaps/pca.md | 13 tests/testthat/_snaps/percentile.md | 6 tests/testthat/_snaps/pls.md | 23 tests/testthat/_snaps/poly.md | 8 tests/testthat/_snaps/poly_bernstein.md | 9 tests/testthat/_snaps/profile.md | 17 tests/testthat/_snaps/range.md | 7 tests/testthat/_snaps/ratio.md | 5 tests/testthat/_snaps/regex.md | 10 tests/testthat/_snaps/relevel.md | 6 tests/testthat/_snaps/relu.md | 8 tests/testthat/_snaps/rename_at.md | 10 tests/testthat/_snaps/retraining.md | 4 tests/testthat/_snaps/rm.md | 2 tests/testthat/_snaps/roles.md | 22 tests/testthat/_snaps/sample.md | 8 tests/testthat/_snaps/scale.md | 12 tests/testthat/_snaps/select.md | 2 tests/testthat/_snaps/selections.md | 2 tests/testthat/_snaps/slice.md | 2 tests/testthat/_snaps/sparsity.md | 2 tests/testthat/_snaps/spatialsign.md | 2 tests/testthat/_snaps/spline_b.md | 20 tests/testthat/_snaps/spline_convex.md | 20 tests/testthat/_snaps/spline_monotone.md | 21 tests/testthat/_snaps/spline_natural.md | 12 tests/testthat/_snaps/spline_nonnegative.md | 25 tests/testthat/_snaps/string2factor.md | 4 tests/testthat/_snaps/time.md | 3 tests/testthat/_snaps/tune_args.md | 4 tests/testthat/_snaps/unknown.md | 7 tests/testthat/_snaps/window.md | 24 tests/testthat/helper-extract_parameter_set.R | 5 tests/testthat/test-BoxCox.R | 24 tests/testthat/test-YeoJohnson.R | 30 tests/testthat/test-arrange.R | 56 - tests/testthat/test-bake.R | 26 tests/testthat/test-basics.R | 166 ++-- tests/testthat/test-bin2factor.R | 36 tests/testthat/test-bs.R | 44 - tests/testthat/test-case-weight-functions.R | 6 tests/testthat/test-center.R | 40 - tests/testthat/test-class.R | 48 - tests/testthat/test-classdist.R | 70 - tests/testthat/test-classdist_shrunken.R | 118 +-- tests/testthat/test-colcheck.R | 92 +- tests/testthat/test-column_order.R | 46 - tests/testthat/test-corr.R | 48 - tests/testthat/test-count.R | 78 +- tests/testthat/test-cut.R | 86 +- tests/testthat/test-data.frame.R | 8 tests/testthat/test-date.R | 72 - tests/testthat/test-deprec-impute_bag.R | 2 tests/testthat/test-deprec-impute_knn.R | 2 tests/testthat/test-deprec-impute_lower.R | 2 tests/testthat/test-deprec-impute_median.R | 2 tests/testthat/test-deprec-impute_mena.R | 2 tests/testthat/test-deprec-impute_mode.R | 2 tests/testthat/test-deprec-impute_roll.R | 2 tests/testthat/test-depth.R | 48 - tests/testthat/test-discretize.R | 72 - tests/testthat/test-dummy.R | 154 ++-- tests/testthat/test-dummy_extract.R | 106 +- tests/testthat/test-dummy_multi_choice.R | 88 +- tests/testthat/test-extract-dials.R | 60 - tests/testthat/test-extract_fit_time.R | 8 tests/testthat/test-extract_parameter.R | 2 tests/testthat/test-factor2string.R | 24 tests/testthat/test-filter.R | 88 +- tests/testthat/test-filter_missing.R | 32 tests/testthat/test-format.R | 2 tests/testthat/test-formula.R | 40 - tests/testthat/test-geodist.R | 100 +- tests/testthat/test-grouped_df.R | 6 tests/testthat/test-harmonic.R | 142 +-- tests/testthat/test-holiday.R | 54 - tests/testthat/test-hyperbolic.R | 22 tests/testthat/test-ica.R | 58 - tests/testthat/test-impute_bag.R | 74 - tests/testthat/test-impute_knn.R | 86 +- tests/testthat/test-impute_linear.R | 129 +-- tests/testthat/test-impute_lower.R | 18 tests/testthat/test-impute_mean.R | 89 +- tests/testthat/test-impute_median.R | 42 - tests/testthat/test-impute_mode.R | 46 - tests/testthat/test-impute_roll.R | 64 - tests/testthat/test-indicate_na.R | 68 - tests/testthat/test-integer.R | 26 tests/testthat/test-interact.R | 152 ++-- tests/testthat/test-intercept.R | 24 tests/testthat/test-inverse.R | 20 tests/testthat/test-invlogit.R | 14 tests/testthat/test-isomap.R | 54 - tests/testthat/test-kpca.R | 50 - tests/testthat/test-kpca_poly.R | 60 - tests/testthat/test-kpca_rbf.R | 52 - tests/testthat/test-lag.R | 56 - tests/testthat/test-lincomb.R | 28 tests/testthat/test-log.R | 36 tests/testthat/test-logit.R | 36 tests/testthat/test-matrix.R | 8 tests/testthat/test-misc.R | 32 tests/testthat/test-missing.R | 26 tests/testthat/test-multivariate.R | 4 tests/testthat/test-mutate.R | 84 +- tests/testthat/test-mutate_at.R | 92 +- tests/testthat/test-naomit.R | 32 tests/testthat/test-newvalues.R | 62 - tests/testthat/test-nnmf_sparse.R | 48 - tests/testthat/test-nomial_types.R | 130 +-- tests/testthat/test-normalize.R | 44 - tests/testthat/test-novel.R | 34 tests/testthat/test-ns.R | 44 - tests/testthat/test-num2factor.R | 38 - tests/testthat/test-nzv.R | 98 +- tests/testthat/test-ordinalscore.R | 22 tests/testthat/test-other.R | 70 - tests/testthat/test-pca.R | 86 +- tests/testthat/test-percentile.R | 64 - tests/testthat/test-pls.R | 108 +- tests/testthat/test-pls_old.R | 8 tests/testthat/test-poly.R | 44 - tests/testthat/test-poly_bernstein.R | 38 - tests/testthat/test-prepper.R | 2 tests/testthat/test-profile.R | 62 - tests/testthat/test-ptype.R | 10 tests/testthat/test-range.R | 94 +- tests/testthat/test-range_check.R | 28 tests/testthat/test-ratio.R | 50 - tests/testthat/test-regex.R | 70 - tests/testthat/test-relevel.R | 32 tests/testthat/test-relu.R | 64 - tests/testthat/test-rename.R | 60 - tests/testthat/test-rename_at.R | 52 - tests/testthat/test-retraining.R | 24 tests/testthat/test-rm.R | 114 +-- tests/testthat/test-roles.R | 122 +-- tests/testthat/test-sample.R | 114 +-- tests/testthat/test-scale.R | 52 - tests/testthat/test-select.R | 50 - tests/testthat/test-selections.R | 46 - tests/testthat/test-shuffle.R | 24 tests/testthat/test-skipping.R | 40 - tests/testthat/test-slice.R | 80 +- tests/testthat/test-sparsevctrs.R | 94 +- tests/testthat/test-sparsity.R | 16 tests/testthat/test-spatialsign.R | 50 - tests/testthat/test-spline_b.R | 66 - tests/testthat/test-spline_convex.R | 62 - tests/testthat/test-spline_monotone.R | 62 - tests/testthat/test-spline_natural.R | 46 - tests/testthat/test-spline_nonnegative.R | 66 - tests/testthat/test-sqrt.R | 18 tests/testthat/test-string2factor.R | 38 - tests/testthat/test-stringsAsFactors.R | 8 tests/testthat/test-term_info.R | 8 tests/testthat/test-tidy.R | 8 tests/testthat/test-time.R | 38 - tests/testthat/test-tune_args.R | 28 tests/testthat/test-unknown.R | 36 tests/testthat/test-unorder.R | 20 tests/testthat/test-window.R | 66 - tests/testthat/test-zv.R | 26 vignettes/Dummies.Rmd | 106 +- vignettes/Roles.Rmd | 95 +- vignettes/Selecting_Variables.Rmd | 36 vignettes/Skipping.Rmd | 17 vignettes/recipes.Rmd | 62 + 476 files changed, 6111 insertions(+), 6027 deletions(-)
Title: One Sample Mendelian Randomization and Instrumental Variable
Analyses
Description: Useful functions for one-sample (individual level data)
Mendelian randomization and instrumental variable analyses. The
package includes implementations of; the Sanderson and Windmeijer
(2016) <doi:10.1016/j.jeconom.2015.06.004> conditional F-statistic,
the multiplicative structural mean model Hernán and Robins (2006)
<doi:10.1097/01.ede.0000222409.00878.37>, and two-stage predictor
substitution and two-stage residual inclusion estimators explained by
Terza et al. (2008) <doi:10.1016/j.jhealeco.2007.09.009>.
Author: Tom Palmer [aut, cre] ,
Wes Spiller [aut] ,
Eleanor Sanderson [aut]
Maintainer: Tom Palmer <remlapmot@hotmail.com>
Diff between OneSampleMR versions 0.1.5 dated 2024-06-26 and 0.1.6 dated 2025-05-21
DESCRIPTION | 20 ++- MD5 | 50 ++++----- NEWS.md | 6 + R/fsw.R | 35 +++--- R/msmm.R | 72 ++++++------- R/tsps.R | 111 +++++++++----------- R/tsri.R | 139 +++++++++++-------------- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/compare-smm-fits.R | 6 - inst/doc/compare-smm-fits.Rmd | 6 - inst/doc/compare-smm-fits.html | 11 +- inst/doc/f-statistic-comparison.R | 10 - inst/doc/f-statistic-comparison.Rmd | 10 - inst/doc/f-statistic-comparison.html | 189 +++++++++++++++++------------------ man/OneSampleMR-package.Rd | 1 man/summary.msmm.Rd | 2 man/tsps.Rd | 2 man/tsri.Rd | 2 tests/testthat/test-fsw.R | 90 ++++++++++++++-- tests/testthat/test-msmm.R | 74 ++++++------- tests/testthat/test-tsps.R | 36 +++--- tests/testthat/test-tsri.R | 56 +++++----- vignettes/compare-smm-fits.Rmd | 6 - vignettes/f-statistic-comparison.Rmd | 10 - 26 files changed, 501 insertions(+), 445 deletions(-)
Title: Functions for Tabular Reporting
Description: Use a grammar for creating and customizing pretty tables.
The following formats are supported: 'HTML', 'PDF', 'RTF', 'Microsoft
Word', 'Microsoft PowerPoint' and R 'Grid Graphics'. 'R Markdown',
'Quarto' and the package 'officer' can be used to produce the result
files. The syntax is the same for the user regardless of the type of
output to be produced. A set of functions allows the creation,
definition of cell arrangement, addition of headers or footers,
formatting and definition of cell content with text and or images. The
package also offers a set of high-level functions that allow tabular
reporting of statistical models and the creation of complex cross
tabulations.
Author: David Gohel [aut, cre],
ArData [cph],
Clementine Jager [ctb],
Eli Daniels [ctb],
Panagiotis Skintzos [aut],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb],
Titouan Robert [ctb],
Michael Barrowman [ctb],
Atsushi Yasumoto [ctb],
Paul Julian [ctb],
Sean B [...truncated...]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.9.7 dated 2024-10-27 and 0.9.8 dated 2025-05-21
DESCRIPTION | 8 +++--- MD5 | 49 ++++++++++++++++++------------------- NEWS.md | 11 ++++++++ R/00_utils.R | 12 --------- R/01_fpstruct.R | 4 ++- R/augment_rows.R | 4 +-- R/captions.R | 7 +++++ R/flextable.R | 2 - R/grid_grobs.R | 10 ++++--- R/paginate.R | 4 +-- R/ph_with.R | 1 R/printers.R | 10 ++----- R/proc_freq.R | 4 +-- R/styles.R | 10 +++---- R/summarizor.R | 3 +- R/utils.R | 2 - README.md | 7 ++--- build/vignette.rds |binary man/gen_grob.Rd | 11 +++++--- man/paginate.Rd | 4 +-- man/set_table_properties.Rd | 2 - man/tab_settings.Rd | 6 ++-- tests/testthat/test-as_flextable.R | 3 -- tests/testthat/test-latex.R | 4 +-- tests/testthat/test-new-rows.R | 4 +-- tests/testthat/test-tab_settings.R |only 26 files changed, 96 insertions(+), 86 deletions(-)
Title: Stratigraphic Paleobiology Modeling Pipelines
Description: The fossil record is a joint expression of ecological, taphonomic,
evolutionary, and stratigraphic processes (Holland and Patzkowsky, 2012, ISBN:978-0226649382).
This package allowing to simulate biological processes in the time domain
(e.g., trait evolution, fossil abundance, phylogenetic trees), and examine how their expression
in the rock record (stratigraphic domain) is influenced based on
age-depth models, ecological niche models, and taphonomic effects.
Functions simulating common processes used in modeling trait evolution or
event type data such as first/last occurrences are provided and can be used
standalone or as part of a pipeline. The package comes with example
data sets and tutorials in several vignettes, which can be used as a
template to set up one's own simulation.
Author: Niklas Hohmann [aut, cre]
Maintainer: Niklas Hohmann <N.H.Hohmann@uu.nl>
Diff between StratPal versions 0.4.0 dated 2025-03-27 and 0.5.0 dated 2025-05-21
DESCRIPTION | 13 +- MD5 | 38 ++++---- NEWS.md | 2 R/apply_niche.R | 14 +- README.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 6 - inst/doc/FossilSim_integration.R | 113 +++++++++++++++++++++++ inst/doc/FossilSim_integration.Rmd | 151 +++++++++++++++++++++++++++++++ inst/doc/FossilSim_integration.html | 170 +++++++++++++++++++++++++++++++++++- inst/doc/StratPal.R | 31 +++--- inst/doc/StratPal.Rmd | 6 + inst/doc/StratPal.html | 7 + inst/doc/event_data.R | 6 - inst/doc/phenotypic_evolution.R | 8 - man/StratPal-package.Rd | 2 man/apply_niche.Rd | 14 +- vignettes/FossilSim_integration.Rmd | 151 +++++++++++++++++++++++++++++++ vignettes/StratPal.Rmd | 6 + 20 files changed, 671 insertions(+), 71 deletions(-)
Title: Bayesian Methods for State Space Models
Description: Implements methods for Bayesian analysis of State Space Models.
Includes implementations of the Particle Marginal Metropolis-Hastings
algorithm described in Andrieu et al. (2010)
<doi:10.1111/j.1467-9868.2009.00736.x> and automatic tuning inspired by
Pitt et al. (2012) <doi:10.1016/j.jeconom.2012.06.004> and J. Dahlin and
T. B. Schön (2019) <doi:10.18637/jss.v088.c02>.
Author: Bjarke Hautop [aut, cre, cph]
Maintainer: Bjarke Hautop <bjarke.hautop@gmail.com>
Diff between bayesSSM versions 0.4.7 dated 2025-04-23 and 0.5.0 dated 2025-05-21
DESCRIPTION | 18 - MD5 | 60 ++--- NAMESPACE | 1 NEWS.md | 23 +- R/ess.R | 10 R/particle_filter.R | 360 ++++++++++++++++------------------ R/pmmh.R | 77 ++++--- R/pmmh_tuning.R | 11 - R/print.R | 31 -- R/resampling.R | 46 +++- R/rhat.R | 5 R/summary.R | 13 - R/utils.R | 61 +++-- README.md | 112 +++++----- inst/doc/bayesSSM.R | 27 +- inst/doc/bayesSSM.Rmd | 50 ++-- inst/doc/bayesSSM.html | 108 +++++----- man/figures/DAG_SSM.png |binary man/particle_filter.Rd | 71 +++--- man/pmmh.Rd | 53 +++-- man/print.pmmh_output.Rd | 5 man/summary.pmmh_output.Rd | 5 tests/testthat/test-ess.R | 20 + tests/testthat/test-particle_filter.R | 68 ++++-- tests/testthat/test-pmmh.R | 30 +- tests/testthat/test-pmmh_tuning.R | 49 +++- tests/testthat/test-resampling.R | 32 +++ tests/testthat/test-rhat.R | 5 tests/testthat/test-summary.R | 21 - tests/testthat/test-utils.R | 26 +- vignettes/bayesSSM.Rmd | 50 ++-- 31 files changed, 845 insertions(+), 603 deletions(-)