Title: Unit Testing for R
Description: Software testing is important, but, in part because
it is frustrating and boring, many of us avoid it. 'testthat' is a
testing framework for R that is easy to learn and use, and integrates
with your existing 'workflow'.
Author: Hadley Wickham [aut, cre],
RStudio [cph, fnd],
R Core team [ctb] (Implementation of utils::recover())
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between testthat versions 3.0.2 dated 2021-02-14 and 3.0.3 dated 2021-06-16
DESCRIPTION | 6 - MD5 | 106 ++++++++++++------------ NAMESPACE | 4 NEWS.md | 31 +++++++ R/edition.R | 14 +-- R/expect-condition.R | 4 R/expect-self-test.R | 22 +++-- R/expectations-matches.R | 55 ++++++++++++ R/reporter-check.R | 2 R/reporter-junit.R | 1 R/reporter-progress.R | 2 R/snapshot-file.R | 66 +++++++++++++-- R/snapshot-reporter.R | 12 +- R/snapshot-serialize.R | 2 R/snapshot.R | 7 + build/vignette.rds |binary inst/doc/custom-expectation.html | 3 inst/doc/parallel.Rmd | 2 inst/doc/parallel.html | 3 inst/doc/skipping.html | 3 inst/doc/snapshotting.R | 49 +++++++++-- inst/doc/snapshotting.Rmd | 86 ++++++++++++++++---- inst/doc/snapshotting.html | 136 ++++++++++++++++++++++++-------- inst/doc/test-fixtures.html | 1 inst/doc/third-edition.html | 3 inst/examples/test-success.R | 2 man/CheckReporter.Rd | 3 man/DebugReporter.Rd | 1 man/FailReporter.Rd | 1 man/JunitReporter.Rd | 19 ++++ man/ListReporter.Rd | 1 man/LocationReporter.Rd | 1 man/MinimalReporter.Rd | 1 man/MultiReporter.Rd | 1 man/ProgressReporter.Rd | 3 man/RStudioReporter.Rd | 1 man/Reporter.Rd | 1 man/SilentReporter.Rd | 1 man/StopReporter.Rd | 1 man/SummaryReporter.Rd | 1 man/TapReporter.Rd | 1 man/TeamcityReporter.Rd | 1 man/expect_error.Rd | 4 man/expect_match.Rd | 25 +++++ man/expect_output.Rd | 2 man/expect_snapshot_file.Rd | 52 +++++++++++- tests/testthat/test-edition.R | 9 ++ tests/testthat/test-expect-match.R | 7 + tests/testthat/test-snapshot |only tests/testthat/test-snapshot-file.R | 28 ++++++ tests/testthat/test-snapshot-reporter.R | 22 +++++ tests/testthat/test-snapshot.R | 2 vignettes/parallel.Rmd | 2 vignettes/snapshotting.Rmd | 86 ++++++++++++++++---- 54 files changed, 720 insertions(+), 179 deletions(-)
Title: Cell Type Identification and Discovery from Single Cell Gene
Expression Data
Description: An implementation of neural networks trained with flow-sorted gene expression data to classify cellular phenotypes in single cell RNA-sequencing data. See Chamberlain M et al. (2021) <doi:10.1101/2021.02.01.429207> for more details.
Author: Mathew Chamberlain [aut, cre],
Virginia Savova [aut],
Richa Hanamsagar [aut],
Frank Nestle [aut],
Emanuele de Rinaldis [aut],
Sanofi US [fnd]
Maintainer: Mathew Chamberlain <chamberlainphd@gmail.com>
Diff between SignacX versions 2.2.0 dated 2021-03-01 and 2.2.1 dated 2021-06-16
DESCRIPTION | 14 MD5 | 33 - R/Signac.R | 5 R/SignacFast.R | 5 R/helper_functions.R | 25 - build/vignette.rds |binary inst/doc/Crabeating_vignette.html | 300 +++----------- inst/doc/SignacFast-Seurat_AMP_RA.html | 318 +++------------ inst/doc/signac-SPRING_Learning.html | 328 +++------------ inst/doc/signac-Seurat_AMP.html | 394 +++++------------- inst/doc/signac-Seurat_AMP_RA.html | 334 ++++------------ inst/doc/signac-Seurat_CITE-seq.html | 396 +++++-------------- inst/doc/signac-Seurat_pbmcs.html | 360 ++++------------- man/GenerateLabels.Rd | 14 man/Signac.Rd | 5 man/SignacFast.Rd | 5 vignettes/fls/orthologs.rds |binary vignettes/fls/tutorial_times_Crabeating_vignette.csv |only 18 files changed, 694 insertions(+), 1842 deletions(-)
Title: Calculate 3D Contour Meshes Using the Marching Cubes Algorithm
Description: A port of the C++ routine for applying the marching cubes algorithm written by
Thomas Lewiner et al. (2012) <doi:10.1080/10867651.2003.10487582> into an R package.
The package supplies the contour3d() function, which takes a 3-dimensional array of voxel
data and calculates the vertices, vertex normals, and faces for a 3d mesh representing
the contour(s) at a given level.
Author: S. H. Wilks <sw463@cam.ac.uk> [aut, cre],
Thomas Lewiner <lewiner@gmail.com> [aut]
Maintainer: S. H. Wilks <sw463@cam.ac.uk>
Diff between rmarchingcubes versions 0.1.2 dated 2021-06-16 and 0.1.3 dated 2021-06-16
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 3 +++ README.md | 4 ++-- inst/doc/calculating_3d_contours.R | 2 +- inst/doc/calculating_3d_contours.Rmd | 2 +- inst/doc/calculating_3d_contours.html | 2 +- src/MarchingCubes.cpp | 2 +- vignettes/calculating_3d_contours.Rmd | 2 +- 9 files changed, 21 insertions(+), 18 deletions(-)
More information about rmarchingcubes at CRAN
Permanent link
Title: Geographic Tools for Studying Gerrymandering
Description: A compilation of tools to complete common tasks for studying gerrymandering. This focuses on the geographic tool side of common problems, such as linking different levels of spatial units or estimating how to break up units. Functions exist for creating redistricting-focused data for the US.
Author: Christopher T. Kenny [aut, cre]
(<https://orcid.org/0000-0002-9386-6860>)
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Diff between geomander versions 1.0.7 dated 2021-06-14 and 1.0.8 dated 2021-06-16
DESCRIPTION | 10 ++++----- MD5 | 30 +++++++++++++-------------- README.md | 20 +++--------------- build/partial.rdb |binary build/vignette.rds |binary data/checkerboard.rda |binary data/checkerboard_adj.rda |binary data/nrcsd.rda |binary data/orange.rda |binary data/precincts.rda |binary data/rockland.rda |binary data/towns.rda |binary data/va18sub.rda |binary data/va_blocks.rda |binary data/va_vtd.rda |binary inst/doc/Redistricting_School_Districts.html | 14 ++++++------ 16 files changed, 31 insertions(+), 43 deletions(-)
Title: Cyclic Coordinate Descent for Logistic, Poisson and Survival
Analysis
Description: This model fitting tool incorporates cyclic coordinate descent and
majorization-minimization approaches to fit a variety of regression models
found in large-scale observational healthcare data. Implementations focus
on computational optimization and fine-scale parallelization to yield
efficient inference in massive datasets. Please see:
Suchard, Simpson, Zorych, Ryan and Madigan (2013) <doi:10.1145/2414416.2414791>.
Author: Marc A. Suchard [aut, cre],
Martijn J. Schuemie [aut],
Trevor R. Shaddox [aut],
Yuxi Tian [aut],
Jianxiao Yang [aut],
Eric Kawaguchi [aut],
Sushil Mittal [ctb],
Observational Health Data Sciences and Informatics [cph],
Marcus Geelnard [cph, ctb] (provided the TinyThread library),
Rutgers University [cph, ctb] (provided the HParSearch routine),
R Development Core Team [cph, ctb] (provided the ZeroIn routine)
Maintainer: Marc A. Suchard <msuchard@ucla.edu>
Diff between Cyclops versions 3.1.1 dated 2021-03-23 and 3.1.2 dated 2021-06-16
DESCRIPTION | 6 - MD5 | 13 +- NEWS.md | 7 + R/GetFrineGrayWeights.R | 2 R/ModelFit.R | 133 +++++++++++++++++++++++++-- man/getCyclopsProfileLogLikelihood.Rd | 25 ++++- tests/testthat/test-largeProfileLikelihood.R |only tests/testthat/test-profileLikelihood.R | 26 +++++ 8 files changed, 189 insertions(+), 23 deletions(-)
Title: System for Building and Debugging C/C++ Dynamic Libraries
Description: A build system based on 'GNU make' that creates and
maintains (simply) make files in an R session and provides
GUI debugging support through 'Microsoft Visual Code'.
Author: Paavo Jumppanen [aut, cre]
Maintainer: Paavo Jumppanen <paavo.jumppanen@csiro.au>
Diff between BuildSys versions 1.1.1 dated 2021-06-11 and 1.1.2 dated 2021-06-16
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/BuildSys.R | 19 +++++-------------- build/partial.rdb |binary 4 files changed, 11 insertions(+), 20 deletions(-)
Title: Lightweight Infrastructure for Handling Multiple R Markdown
Documents
Description: Provides an infrastructure for handling multiple R Markdown
reports, including automated curation and time-stamping of outputs,
parameterisation and provision of helper functions to manage dependencies.
Author: Thibaut Jombart [aut],
Amy Gimma [ctb],
Tim Taylor [aut, cre] (<https://orcid.org/0000-0002-8587-7113>)
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between reportfactory versions 0.3.0 dated 2021-04-26 and 0.3.1 dated 2021-06-16
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 10 +++++++++- R/list_deps.R | 8 ++++---- tests/testthat/test-list_deps.R | 7 +++++-- 5 files changed, 27 insertions(+), 16 deletions(-)
Title: Consistent Significance Controlled Variable Selection in
Generalized Linear Regression
Description: Provides significance controlled variable selection algorithms with different directions (forward, backward, stepwise) based on diverse criteria (AIC, BIC, adjusted r-square, PRESS, or p-value). The algorithm selects a final model with only significant variables defined as those with significant p-values after multiple testing correction such as Bonferroni, False Discovery Rate, etc.
Author: Jongwook Kim, Adriano Zanin Zambom
Maintainer: Jongwook Kim <jongwook226@gmail.com>
Diff between SignifReg versions 3.0 dated 2020-04-17 and 4.0 dated 2021-06-16
DESCRIPTION | 15 MD5 | 26 - NAMESPACE | 3 R/SignifReg.R | 803 +++++++++++--------------------------------------- R/add1SignifReg.R | 303 +++++------------- R/add1summary.R | 223 +++++-------- R/drop1SignifReg.R | 317 ++++++------------- R/drop1summary.R | 226 ++++++-------- build/partial.rdb |binary man/SignifReg.Rd | 64 ++- man/add1SignifReg.Rd | 44 +- man/add1summary.Rd | 34 +- man/drop1SignifReg.Rd | 42 +- man/drop1summary.Rd | 30 + 14 files changed, 704 insertions(+), 1426 deletions(-)
Title: Calculate Indices of Dynamic Interaction for Wildlife Tracking
Data
Description: Dynamic interaction refers to spatial-temporal associations
in the movements of two (or more) animals. This package provides tools for
calculating a suite of indices used for quantifying dynamic interaction with
wildlife telemetry data. For more information on each of the methods employed
see the references within. The package (as of version >= 0.3) also has new tools for
automating contact analysis in large tracking datasets. The package draws
heavily on the classes and methods developed in the 'adehabitat' packages.
Author: Jed Long [aut, cre] (<https://orcid.org/0000-0002-2815-0399>)
Maintainer: Jed Long <jed.long@uwo.ca>
Diff between wildlifeDI versions 0.4.0 dated 2021-03-04 and 0.4.1 dated 2021-06-16
DESCRIPTION | 11 MD5 | 28 - NAMESPACE | 1 NEWS | 7 R/conContext.R | 18 R/conDisplacement.R | 2 R/conMatrix.R |only README.md | 2 build/vignette.rds |binary data/mockhunt.RData |binary inst/doc/wildlifeDI-vignette-contact_analysis.R | 90 ++++ inst/doc/wildlifeDI-vignette-contact_analysis.Rmd | 154 +++++++ inst/doc/wildlifeDI-vignette-contact_analysis.html | 415 ++++++++++++++++++--- inst/doc/wildlifeDI-vignette.html | 11 man/conMatrix.Rd |only vignettes/wildlifeDI-vignette-contact_analysis.Rmd | 154 +++++++ 16 files changed, 773 insertions(+), 120 deletions(-)
Title: A Set of Common Tools for Seasonal to Decadal Verification
Description: The advanced version of package 's2dverification'. It is
intended for 'seasonal to decadal' (s2d) climate forecast verification, but
it can also be used in other kinds of forecasts or general climate analysis.
This package is specially designed for the comparison between the experimental
and observational datasets. The functionality of the included functions covers
from data retrieval, data post-processing, skill scores against observation,
to visualization. Compared to 's2dverification', 's2dv' is more compatible
with the package 'startR', able to use multiple cores for computation and
handle multi-dimensional arrays with a higher flexibility.
Author: BSC-CNS [aut, cph],
An-Chi Ho [aut, cre],
Nuria Perez-Zanon [aut],
Roberto Bilbao [ctb],
Carlos Delgado [ctb],
Llorenç Lledó [ctb],
Andrea Manrique [ctb],
Deborah Verfaillie [ctb]
Maintainer: An-Chi Ho <an.ho@bsc.es>
Diff between s2dv versions 0.1.1 dated 2020-11-16 and 1.0.0 dated 2021-06-16
DESCRIPTION | 16 - MD5 | 203 ++++++++++++-------- NAMESPACE | 37 +++ NEWS.md | 17 + R/ACC.R |only R/AMV.R | 66 +++--- R/Ano.R | 67 ++++-- R/Ano_CrossValid.R |only R/BrierScore.R |only R/CDORemap.R |only R/Clim.R | 18 - R/Cluster.R |only R/Composite.R | 10 - R/Consist_Trend.R |only R/Corr.R | 261 +++++++++++++++++++++----- R/EOF.R |only R/Eno.R | 2 R/EuroAtlanticTC.R |only R/Filter.R |only R/GMST.R | 87 ++++---- R/GSAT.R | 67 +++--- R/Histo2Hindcast.R |only R/InsertDim.R | 60 +----- R/Load.R | 101 ---------- R/MeanDims.R | 43 +--- R/NAO.R |only R/Persistence.R | 130 +++++++++---- R/Plot2VarsVsLTime.R |only R/PlotACC.R |only R/PlotAno.R | 5 R/PlotBoxWhisker.R |only R/PlotEquiMap.R | 211 +++++++++++++++++---- R/PlotStereoMap.R | 360 +++++++++++++++++++++++++++++++++--- R/PlotVsLTime.R |only R/ProbBins.R |only R/ProjectField.R |only R/REOF.R |only R/RMS.R | 9 R/RMSSS.R | 11 - R/RandomWalkTest.R | 2 R/RatioRMS.R |only R/RatioSDRMS.R |only R/Regression.R | 2 R/Reorder.R | 6 R/SPOD.R | 67 +++--- R/Season.R | 23 +- R/Smoothing.R | 2 R/Spectrum.R |only R/Spread.R |only R/StatSeasAtlHurr.R |only R/TPI.R | 67 +++--- R/Trend.R | 18 - R/UltimateBrier.R |only R/Utils.R | 144 ++++---------- data/sampleDepthData.RData |binary data/sampleMap.RData |binary data/sampleTimeSeries.RData |binary inst/doc/FAQ.md | 28 ++ inst/doc/profiling_compare_apply.md |only man/ACC.Rd |only man/AMV.Rd | 52 +++-- man/AnimateMap.Rd | 33 ++- man/Ano.Rd | 6 man/Ano_CrossValid.Rd |only man/BrierScore.Rd |only man/CDORemap.Rd |only man/Clim.Rd | 16 + man/Cluster.Rd |only man/ColorBar.Rd | 32 ++- man/Composite.Rd | 14 + man/ConfigApplyMatchingEntries.Rd | 11 - man/ConfigEditDefinition.Rd | 1 man/ConfigEditEntry.Rd | 49 +++- man/ConfigFileOpen.Rd | 3 man/ConfigShowSimilarEntries.Rd | 17 + man/ConfigShowTable.Rd | 3 man/Consist_Trend.Rd |only man/Corr.Rd | 61 +++++- man/EOF.Rd |only man/Eno.Rd | 1 man/EuroAtlanticTC.Rd |only man/Filter.Rd |only man/GMST.Rd | 78 ++++--- man/GSAT.Rd | 53 +++-- man/Histo2Hindcast.Rd |only man/InsertDim.Rd | 3 man/LeapYear.Rd | 1 man/Load.Rd | 40 +++- man/MeanDims.Rd | 14 - man/NAO.Rd |only man/Persistence.Rd | 54 +++-- man/Plot2VarsVsLTime.Rd |only man/PlotACC.Rd |only man/PlotAno.Rd | 31 ++- man/PlotBoxWhisker.Rd |only man/PlotClim.Rd | 26 ++ man/PlotEquiMap.Rd | 117 +++++++++-- man/PlotLayout.Rd | 73 +++++-- man/PlotMatrix.Rd | 29 ++ man/PlotSection.Rd | 25 ++ man/PlotStereoMap.Rd | 134 +++++++++++-- man/PlotVsLTime.Rd |only man/ProbBins.Rd |only man/ProjectField.Rd |only man/REOF.Rd |only man/RMS.Rd | 14 + man/RMSSS.Rd | 11 - man/RandomWalkTest.Rd | 1 man/RatioRMS.Rd |only man/RatioSDRMS.Rd |only man/Regression.Rd | 14 + man/Reorder.Rd | 1 man/SPOD.Rd | 53 +++-- man/Season.Rd | 13 + man/Smoothing.Rd | 1 man/Spectrum.Rd |only man/Spread.Rd |only man/StatSeasAtlHurr.Rd |only man/TPI.Rd | 53 +++-- man/ToyModel.Rd | 15 + man/Trend.Rd | 13 + man/UltimateBrier.Rd |only man/clim.palette.Rd | 3 man/s2dv-package.Rd | 48 +++- man/sampleDepthData.Rd | 1 man/sampleMap.Rd | 1 man/sampleTimeSeries.Rd | 1 127 files changed, 2305 insertions(+), 1055 deletions(-)
Title: Fitting Hidden Markov Models to Financial Data
Description: Fitting (hierarchical) hidden Markov models
to daily share prices provided by <https://finance.yahoo.com/>.
See <https://github.com/loelschlaeger/fHMM#readme> for documentation and examples.
Author: Lennart Oelschläger [aut, cre],
Timo Adam [aut],
Michels Rouven [aut]
Maintainer: Lennart Oelschläger <lennart.oelschlaeger@uni-bielefeld.de>
Diff between fHMM versions 0.2.0 dated 2021-03-13 and 0.3.0 dated 2021-06-16
fHMM-0.2.0/fHMM/R/Gamma2delta.R |only fHMM-0.2.0/fHMM/R/Gamma2gammasCon.R |only fHMM-0.2.0/fHMM/R/Gamma2gammasUncon.R |only fHMM-0.2.0/fHMM/R/dfCon2dfUncon.R |only fHMM-0.2.0/fHMM/R/dfUncon2dfCon.R |only fHMM-0.2.0/fHMM/R/gammasCon2Gamma.R |only fHMM-0.2.0/fHMM/R/gammasCon2gammasUncon.R |only fHMM-0.2.0/fHMM/R/gammasUncon2Gamma.R |only fHMM-0.2.0/fHMM/R/gammasUncon2gammasCon.R |only fHMM-0.2.0/fHMM/R/muCon2muUncon.R |only fHMM-0.2.0/fHMM/R/muUncon2muCon.R |only fHMM-0.2.0/fHMM/R/nLL_hhmm.R |only fHMM-0.2.0/fHMM/R/nLL_hmm.R |only fHMM-0.2.0/fHMM/R/sigmaCon2sigmaUncon.R |only fHMM-0.2.0/fHMM/R/sigmaUncon2sigmaCon.R |only fHMM-0.2.0/fHMM/R/thetaCon2thetaList.R |only fHMM-0.2.0/fHMM/R/thetaCon2thetaUncon.R |only fHMM-0.2.0/fHMM/R/thetaList2thetaCon.R |only fHMM-0.2.0/fHMM/R/thetaList2thetaListOrdered.R |only fHMM-0.2.0/fHMM/R/thetaList2thetaUncon.R |only fHMM-0.2.0/fHMM/R/thetaUncon2thetaCon.R |only fHMM-0.2.0/fHMM/R/thetaUncon2thetaList.R |only fHMM-0.2.0/fHMM/R/thetaUncon2thetaUnconSplit.R |only fHMM-0.2.0/fHMM/R/thetaUnconSplit2thetaList.R |only fHMM-0.3.0/fHMM/DESCRIPTION | 17 - fHMM-0.3.0/fHMM/MD5 | 156 ++++----- fHMM-0.3.0/fHMM/NAMESPACE | 15 fHMM-0.3.0/fHMM/NEWS.md | 13 fHMM-0.3.0/fHMM/R/apply_viterbi.R | 6 fHMM-0.3.0/fHMM/R/check_controls.R | 347 +++++++++------------- fHMM-0.3.0/fHMM/R/check_decoding.R | 14 fHMM-0.3.0/fHMM/R/check_estimation.R | 8 fHMM-0.3.0/fHMM/R/check_saving.R | 10 fHMM-0.3.0/fHMM/R/compute_likelihood.R |only fHMM-0.3.0/fHMM/R/create_visuals.R | 22 - fHMM-0.3.0/fHMM/R/download_data.R | 19 - fHMM-0.3.0/fHMM/R/exception.R | 43 +- fHMM-0.3.0/fHMM/R/fit_hmm.R | 68 ++-- fHMM-0.3.0/fHMM/R/init_est.R | 4 fHMM-0.3.0/fHMM/R/max_likelihood.R | 33 +- fHMM-0.3.0/fHMM/R/parameter_names.R | 4 fHMM-0.3.0/fHMM/R/parameter_transformations.R |only fHMM-0.3.0/fHMM/R/plot_sdd.R | 21 - fHMM-0.3.0/fHMM/R/plot_ts.R | 128 ++++---- fHMM-0.3.0/fHMM/R/process_data.R | 69 ++-- fHMM-0.3.0/fHMM/R/pseudo_residuals.R | 22 - fHMM-0.3.0/fHMM/R/read_data.R | 151 ++++----- fHMM-0.3.0/fHMM/R/simulate_data.R | 56 +-- fHMM-0.3.0/fHMM/R/zzz.R |only fHMM-0.3.0/fHMM/README.md | 214 ++++--------- fHMM-0.3.0/fHMM/build |only fHMM-0.3.0/fHMM/inst |only fHMM-0.3.0/fHMM/man/Gamma2delta.Rd | 3 fHMM-0.3.0/fHMM/man/Gamma2gammasCon.Rd | 9 fHMM-0.3.0/fHMM/man/Gamma2gammasUncon.Rd | 3 fHMM-0.3.0/fHMM/man/check_controls.Rd | 7 fHMM-0.3.0/fHMM/man/check_decoding.Rd | 2 fHMM-0.3.0/fHMM/man/check_saving.Rd | 6 fHMM-0.3.0/fHMM/man/dfCon2dfUncon.Rd | 3 fHMM-0.3.0/fHMM/man/dfUncon2dfCon.Rd | 3 fHMM-0.3.0/fHMM/man/fit_hmm.Rd | 26 - fHMM-0.3.0/fHMM/man/gammasCon2Gamma.Rd | 3 fHMM-0.3.0/fHMM/man/gammasCon2gammasUncon.Rd | 3 fHMM-0.3.0/fHMM/man/gammasUncon2Gamma.Rd | 3 fHMM-0.3.0/fHMM/man/gammasUncon2gammasCon.Rd | 3 fHMM-0.3.0/fHMM/man/muCon2muUncon.Rd | 3 fHMM-0.3.0/fHMM/man/muUncon2muCon.Rd | 3 fHMM-0.3.0/fHMM/man/nLL_hhmm.Rd | 3 fHMM-0.3.0/fHMM/man/nLL_hmm.Rd | 3 fHMM-0.3.0/fHMM/man/plot_ts.Rd | 10 fHMM-0.3.0/fHMM/man/process_data.Rd | 4 fHMM-0.3.0/fHMM/man/read_data.Rd | 11 fHMM-0.3.0/fHMM/man/sigmaCon2sigmaUncon.Rd | 3 fHMM-0.3.0/fHMM/man/sigmaUncon2sigmaCon.Rd | 3 fHMM-0.3.0/fHMM/man/simulate_data.Rd | 16 - fHMM-0.3.0/fHMM/man/thetaCon2thetaList.Rd | 3 fHMM-0.3.0/fHMM/man/thetaCon2thetaUncon.Rd | 3 fHMM-0.3.0/fHMM/man/thetaList2thetaCon.Rd | 3 fHMM-0.3.0/fHMM/man/thetaList2thetaListOrdered.Rd | 3 fHMM-0.3.0/fHMM/man/thetaList2thetaUncon.Rd | 3 fHMM-0.3.0/fHMM/man/thetaUncon2thetaCon.Rd | 3 fHMM-0.3.0/fHMM/man/thetaUncon2thetaList.Rd | 3 fHMM-0.3.0/fHMM/man/thetaUncon2thetaUnconSplit.Rd | 3 fHMM-0.3.0/fHMM/man/thetaUnconSplit2thetaList.Rd | 3 fHMM-0.3.0/fHMM/vignettes |only 85 files changed, 772 insertions(+), 828 deletions(-)
Title: Designing Multi-Arm Multi-Stage Studies
Description: Designing multi-arm multi-stage studies with (asymptotically) normal endpoints and known variance.
Author: Thomas Jaki <thomas.jaki@pm.me>, Dominic Magirr <d.magirr@gmail.com>, Philip Pallmann <philip.pallmann@gmx.de>
Maintainer: Thomas Jaki <thomas.jaki@pm.me>
Diff between MAMS versions 1.4.1 dated 2020-11-20 and 1.4.2 dated 2021-06-16
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/mams.R | 8 +------- R/tite.mams.R | 4 ++-- inst/NEWS | 9 ++++++++- 5 files changed, 20 insertions(+), 19 deletions(-)
Title: Creates Log Files
Description: Contains functions to help create log files. The
package aims to overcome the difficulty of the base R sink() command. The
log_print() function will print to both the console and the file log,
without interfering in other write operations.
Author: David Bosak [aut, cre]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between logr versions 1.2.3 dated 2021-05-15 and 1.2.4 dated 2021-06-16
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 +++++- README.md | 1 + build/vignette.rds |binary tests/testthat/test-logr.R | 3 +++ 6 files changed, 18 insertions(+), 10 deletions(-)
Title: Handling HL7 FHIR Resources in R
Description: Useful tools for conveniently downloading FHIR resources in xml format
and converting them to R data frames. The package uses FHIR-search to download bundles
from a FHIR server, provides functions to save and read xml-files containing such bundles
and allows flattening the bundles to data.frames using XPath expressions.
Author: Thomas Peschel [aut, cre],
Julia Palm [aut] (<https://orcid.org/0000-0003-1568-5893>),
Jens Przybilla [aut],
Frank Meineke [aut] (<https://orcid.org/0000-0002-9256-7543>)
Maintainer: Thomas Peschel <tpeschel@imise.uni-leipzig.de>
Diff between fhircrackr versions 0.2.1 dated 2020-11-24 and 1.0.0 dated 2021-06-16
fhircrackr-0.2.1/fhircrackr/R/fhircrack.R |only fhircrackr-0.2.1/fhircrackr/R/helpers.R |only fhircrackr-0.2.1/fhircrackr/inst/doc/fhircrackr.R |only fhircrackr-0.2.1/fhircrackr/inst/doc/fhircrackr.Rmd |only fhircrackr-0.2.1/fhircrackr/inst/doc/fhircrackr.pdf |only fhircrackr-0.2.1/fhircrackr/man/fhir_crack.Rd |only fhircrackr-0.2.1/fhircrackr/man/fhir_serialize.Rd |only fhircrackr-0.2.1/fhircrackr/man/fhir_unserialize.Rd |only fhircrackr-0.2.1/fhircrackr/man/medication_bundles.Rd |only fhircrackr-0.2.1/fhircrackr/man/patient_bundles.Rd |only fhircrackr-0.2.1/fhircrackr/tests/testthat/test_002.R |only fhircrackr-0.2.1/fhircrackr/vignettes/fhircrackr.Rmd |only fhircrackr-0.2.1/fhircrackr/vignettes/fhircrackr.html |only fhircrackr-1.0.0/fhircrackr/DESCRIPTION | 23 fhircrackr-1.0.0/fhircrackr/MD5 | 128 + fhircrackr-1.0.0/fhircrackr/NAMESPACE | 25 fhircrackr-1.0.0/fhircrackr/NEWS.md | 42 fhircrackr-1.0.0/fhircrackr/R/design.R | 808 +++------- fhircrackr-1.0.0/fhircrackr/R/download_resources.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_body.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_bundle.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_bundle_list.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_columns.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_design.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_resource_type.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_style.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_table_description.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_table_list.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_url.R |only fhircrackr-1.0.0/fhircrackr/R/fhir_xpath_expression.R |only fhircrackr-1.0.0/fhircrackr/R/flatten_resources.R |only fhircrackr-1.0.0/fhircrackr/R/miscellaneous.R |only fhircrackr-1.0.0/fhircrackr/R/multiple_entries.R |only fhircrackr-1.0.0/fhircrackr/R/sysdata.rda |only fhircrackr-1.0.0/fhircrackr/build/vignette.rds |binary fhircrackr-1.0.0/fhircrackr/data/example_bundles1.rda |only fhircrackr-1.0.0/fhircrackr/data/example_bundles2.rda |only fhircrackr-1.0.0/fhircrackr/data/example_bundles3.rda |only fhircrackr-1.0.0/fhircrackr/data/medication_bundles.rda |binary fhircrackr-1.0.0/fhircrackr/data/patient_bundles.rda |binary fhircrackr-1.0.0/fhircrackr/inst/doc/downloadResources.R |only fhircrackr-1.0.0/fhircrackr/inst/doc/downloadResources.Rmd |only fhircrackr-1.0.0/fhircrackr/inst/doc/downloadResources.pdf |only fhircrackr-1.0.0/fhircrackr/inst/doc/fhircrackr_intro.R |only fhircrackr-1.0.0/fhircrackr/inst/doc/fhircrackr_intro.Rmd |only fhircrackr-1.0.0/fhircrackr/inst/doc/fhircrackr_intro.pdf |only fhircrackr-1.0.0/fhircrackr/inst/doc/flattenResources.R |only fhircrackr-1.0.0/fhircrackr/inst/doc/flattenResources.Rmd |only fhircrackr-1.0.0/fhircrackr/inst/doc/flattenResources.pdf |only fhircrackr-1.0.0/fhircrackr/man/datasets_real.Rd |only fhircrackr-1.0.0/fhircrackr/man/datasets_selfmade.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_authenticate.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_body-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_body-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_bundle-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_bundle_list-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_bundle_serialized-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_bundle_xml-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_bundle_xml.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_canonical_design.Rd | 22 fhircrackr-1.0.0/fhircrackr/man/fhir_capability_statement.Rd | 62 fhircrackr-1.0.0/fhircrackr/man/fhir_columns-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_columns-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_common_columns.Rd | 30 fhircrackr-1.0.0/fhircrackr/man/fhir_crack-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_current_request.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_design-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_design-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_df_list-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_dt_list-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_load.Rd | 6 fhircrackr-1.0.0/fhircrackr/man/fhir_load_design.Rd | 36 fhircrackr-1.0.0/fhircrackr/man/fhir_melt.Rd | 78 fhircrackr-1.0.0/fhircrackr/man/fhir_next_bundle_url.Rd | 40 fhircrackr-1.0.0/fhircrackr/man/fhir_resource_type-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_resource_type.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_rm_indices.Rd | 59 fhircrackr-1.0.0/fhircrackr/man/fhir_save.Rd | 4 fhircrackr-1.0.0/fhircrackr/man/fhir_save_design.Rd | 32 fhircrackr-1.0.0/fhircrackr/man/fhir_search.Rd | 124 + fhircrackr-1.0.0/fhircrackr/man/fhir_serialize-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_style-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_style.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_table_description-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_table_description.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_unserialize-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_url-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_url-methods.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_xpath_expression-class.Rd |only fhircrackr-1.0.0/fhircrackr/man/fhir_xpath_expression.Rd |only fhircrackr-1.0.0/fhircrackr/man/paste_paths.Rd | 24 fhircrackr-1.0.0/fhircrackr/tests/testthat/test_001.R | 37 fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_body.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_bundle.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_bundle_list.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_columns.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_design.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_resource_type.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_style.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_table_description.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_table_list.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_url.R |only fhircrackr-1.0.0/fhircrackr/tests/testthat/test_fhir_xpath_expression.R |only fhircrackr-1.0.0/fhircrackr/vignettes/downloadResources.Rmd |only fhircrackr-1.0.0/fhircrackr/vignettes/downloadResources.html |only fhircrackr-1.0.0/fhircrackr/vignettes/fhircrackr_intro.Rmd |only fhircrackr-1.0.0/fhircrackr/vignettes/fhircrackr_intro.html |only fhircrackr-1.0.0/fhircrackr/vignettes/flattenResources.Rmd |only fhircrackr-1.0.0/fhircrackr/vignettes/flattenResources.html |only 109 files changed, 785 insertions(+), 795 deletions(-)
Title: Report Errors in Web Applications with 'Problem Details' (RFC
7807)
Description: Tools for emitting the 'Problem Details' structure defined in
'RFC' 7807 <https://tools.ietf.org/html/rfc7807> for reporting errors from
'HTTP' servers in a standard way.
Author: Aaron Jacobs [aut, cre]
Maintainer: Aaron Jacobs <atheriel@gmail.com>
Diff between httpproblems versions 1.0.0 dated 2021-02-12 and 1.0.1 dated 2021-06-16
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- NEWS.md | 19 ++++++++++++++----- README.md | 2 +- 4 files changed, 23 insertions(+), 13 deletions(-)
Title: Methods for Pooling P-Values from (Dependent) Tests
Description: Functions for pooling/combining the results (i.e., p-values) from (dependent) hypothesis tests. Included are Fisher's method, Stouffer's method, the inverse chi-square method, the Bonferroni method, Tippett's method, and the binomial test. Each method can be adjusted based on an estimate of the effective number of tests or using empirically derived null distribution using pseudo replicates. For Fisher's, Stouffer's, and the inverse chi-square method, direct generalizations based on multivariate theory are also available (leading to Brown's method, Strube's method, and the generalized inverse chi-square method).
Author: Ozan Cinar [aut, cre] (<https://orcid.org/0000-0003-0329-1977>),
Wolfgang Viechtbauer [aut] (<https://orcid.org/0000-0003-3463-4063>)
Maintainer: Ozan Cinar <ozancinar86@gmail.com>
Diff between poolr versions 0.8-2 dated 2020-02-21 and 1.0-0 dated 2021-06-16
poolr-0.8-2/poolr/R/binotest.r |only poolr-0.8-2/poolr/man/binotest.Rd |only poolr-0.8-2/poolr/man/figures |only poolr-0.8-2/poolr/tests/testthat/test_binotest.r |only poolr-1.0-0/poolr/DESCRIPTION | 13 +- poolr-1.0-0/poolr/MD5 | 80 ++++++------ poolr-1.0-0/poolr/NAMESPACE | 2 poolr-1.0-0/poolr/NEWS.md | 28 ++++ poolr-1.0-0/poolr/R/binomtest.r |only poolr-1.0-0/poolr/R/bonferroni.r | 12 + poolr-1.0-0/poolr/R/empirical.r | 12 + poolr-1.0-0/poolr/R/fisher.r | 14 +- poolr-1.0-0/poolr/R/invchisq.r | 14 +- poolr-1.0-0/poolr/R/meff.r | 15 +- poolr-1.0-0/poolr/R/misc.func.hidden.r | 131 ++++++++++++++++++--- poolr-1.0-0/poolr/R/mvnconv.r | 37 ++--- poolr-1.0-0/poolr/R/print.poolr.r | 27 ++-- poolr-1.0-0/poolr/R/stouffer.r | 14 +- poolr-1.0-0/poolr/R/tippett.r | 12 + poolr-1.0-0/poolr/README.md | 16 +- poolr-1.0-0/poolr/build |only poolr-1.0-0/poolr/data/mvnlookup.rdata |binary poolr-1.0-0/poolr/man/binomtest.Rd |only poolr-1.0-0/poolr/man/bonferroni.Rd | 45 ++++--- poolr-1.0-0/poolr/man/empirical.Rd | 18 +- poolr-1.0-0/poolr/man/fisher.Rd | 49 ++++--- poolr-1.0-0/poolr/man/grid2ip.Rd | 2 poolr-1.0-0/poolr/man/invchisq.Rd | 49 ++++--- poolr-1.0-0/poolr/man/meff.Rd | 34 ++--- poolr-1.0-0/poolr/man/mvnconv.Rd | 30 +--- poolr-1.0-0/poolr/man/mvnlookup.Rd | 36 ++--- poolr-1.0-0/poolr/man/poolr-package.Rd | 21 ++- poolr-1.0-0/poolr/man/print.poolr.Rd | 2 poolr-1.0-0/poolr/man/stouffer.Rd | 53 ++++---- poolr-1.0-0/poolr/man/tippett.Rd | 45 ++++--- poolr-1.0-0/poolr/tests/testthat/test_binomtest.r |only poolr-1.0-0/poolr/tests/testthat/test_bonferroni.r | 32 ++--- poolr-1.0-0/poolr/tests/testthat/test_empirical.r | 7 - poolr-1.0-0/poolr/tests/testthat/test_fisher.r | 44 +++---- poolr-1.0-0/poolr/tests/testthat/test_invchisq.r | 44 +++---- poolr-1.0-0/poolr/tests/testthat/test_meff.r | 1 poolr-1.0-0/poolr/tests/testthat/test_misc_funs.r | 66 +++++++--- poolr-1.0-0/poolr/tests/testthat/test_mvnconv.r | 17 +- poolr-1.0-0/poolr/tests/testthat/test_stouffer.r | 40 +++--- poolr-1.0-0/poolr/tests/testthat/test_tippett.r | 32 ++--- 45 files changed, 679 insertions(+), 415 deletions(-)
Title: Comprehensive Statistical Analysis of Plant Breeding Experiments
Description: Performs statistical data analysis of various Plant Breeding experiments. Contains functions for Line by Tester analysis as per Arunachalam, V.(1974) <http://repository.ias.ac.in/89299/>.
Author: Nandan Patil [cre, aut] (<https://orcid.org/0000-0003-0100-9931>),
Lakshmi R. Gangavati [aut, ctb]
Maintainer: Nandan Patil <tryanother609@gmail.com>
Diff between gpbStat versions 0.3.1 dated 2021-05-13 and 0.3.2 dated 2021-06-16
DESCRIPTION | 8 +- MD5 | 20 ++++- NAMESPACE | 1 R/dm2.R |only R/dm2alpha.R |only R/dm2rcbd.R |only build/vignette.rds |binary data/dm2alpha.rda |only data/dm2rcbd.rda |only inst/doc/dm2.R |only inst/doc/dm2.Rmd |only inst/doc/dm2.html |only inst/doc/ltc.html | 205 ++++++++++++++++++++++++++--------------------------- man/dm2.Rd |only man/dm2alpha.Rd |only man/dm2rcbd.Rd |only vignettes/dm2.Rmd |only 17 files changed, 123 insertions(+), 111 deletions(-)
Title: Formal Concept Analysis
Description: Provides tools to perform fuzzy formal concept
analysis, presented in Wille (1982) <doi:10.1007/978-3-642-01815-2_23>
and in Ganter and Obiedkov (2016) <doi:10.1007/978-3-662-49291-8>. It
provides functions to load and save a formal context, extract its
concept lattice and implications. In addition, one can use the
implications to compute semantic closures of fuzzy sets and, thus,
build recommendation systems.
Author: Domingo Lopez Rodriguez [aut, cre]
(<https://orcid.org/0000-0002-0172-1585>),
Angel Mora [aut],
Jesus Dominguez [aut],
Ana Villalon [aut],
Ian Johnson [ctb]
Maintainer: Domingo Lopez Rodriguez <dominlopez@uma.es>
Diff between fcaR versions 1.0.7 dated 2020-12-02 and 1.1.0 dated 2021-06-16
fcaR-1.0.7/fcaR/R/reorder_layout.R |only fcaR-1.0.7/fcaR/man/SparseConcept.Rd |only fcaR-1.0.7/fcaR/man/SparseSet.Rd |only fcaR-1.0.7/fcaR/man/as_SparseSet.Rd |only fcaR-1.1.0/fcaR/DESCRIPTION | 12 fcaR-1.1.0/fcaR/MD5 | 155 +-- fcaR-1.1.0/fcaR/NAMESPACE | 23 fcaR-1.1.0/fcaR/NEWS.md | 38 fcaR-1.1.0/fcaR/R/RcppExports.R | 4 fcaR-1.1.0/fcaR/R/Rsimplification.R | 11 fcaR-1.1.0/fcaR/R/as_SparseSet.R | 20 fcaR-1.1.0/fcaR/R/brackets_R6.R | 32 fcaR-1.1.0/fcaR/R/check_many_valued.R |only fcaR-1.1.0/fcaR/R/combine_implications.R |only fcaR-1.1.0/fcaR/R/compare_concepts.R | 194 +++ fcaR-1.1.0/fcaR/R/composition.R | 2 fcaR-1.1.0/fcaR/R/compute_closure.R | 23 fcaR-1.1.0/fcaR/R/concept_lattice.R | 330 +----- fcaR-1.1.0/fcaR/R/concept_set.R |only fcaR-1.1.0/fcaR/R/conceptlist.R | 12 fcaR-1.1.0/fcaR/R/concepts_to_matrix.R | 6 fcaR-1.1.0/fcaR/R/context_to_latex.R | 4 fcaR-1.1.0/fcaR/R/datasets.R | 4 fcaR-1.1.0/fcaR/R/entails_equiv.R |only fcaR-1.1.0/fcaR/R/export_to_latex.R | 57 + fcaR-1.1.0/fcaR/R/export_to_string.R | 11 fcaR-1.1.0/fcaR/R/fcaR-package.R | 4 fcaR-1.1.0/fcaR/R/formal_context.R | 767 ++++++++++++--- fcaR-1.1.0/fcaR/R/holds_respects.R |only fcaR-1.1.0/fcaR/R/imp_to_basis.R | 26 fcaR-1.1.0/fcaR/R/imp_to_bsis_bg.R |only fcaR-1.1.0/fcaR/R/implication_set.R | 92 + fcaR-1.1.0/fcaR/R/lattice_plot.R | 81 + fcaR-1.1.0/fcaR/R/match_attributes.R |only fcaR-1.1.0/fcaR/R/print_many_valued.R |only fcaR-1.1.0/fcaR/R/process_batch.R | 36 fcaR-1.1.0/fcaR/R/rsimplification_bg.R |only fcaR-1.1.0/fcaR/R/scaling.R |only fcaR-1.1.0/fcaR/R/scaling_registry.R |only fcaR-1.1.0/fcaR/R/self_intersection.R | 2 fcaR-1.1.0/fcaR/R/simplification.R | 11 fcaR-1.1.0/fcaR/R/simplification_bg.R |only fcaR-1.1.0/fcaR/R/sparse_concept.R | 30 fcaR-1.1.0/fcaR/R/sparse_set.R | 60 - fcaR-1.1.0/fcaR/R/subsets.R | 5 fcaR-1.1.0/fcaR/R/to_cxt.R |only fcaR-1.1.0/fcaR/README.md | 77 + fcaR-1.1.0/fcaR/build/vignette.rds |binary fcaR-1.1.0/fcaR/inst/contexts |only fcaR-1.1.0/fcaR/inst/doc/arules.html | 254 ---- fcaR-1.1.0/fcaR/inst/doc/concept_lattice.R | 33 fcaR-1.1.0/fcaR/inst/doc/concept_lattice.Rmd | 47 fcaR-1.1.0/fcaR/inst/doc/concept_lattice.html | 726 +++++--------- fcaR-1.1.0/fcaR/inst/doc/conceptual-scaling.R |only fcaR-1.1.0/fcaR/inst/doc/conceptual-scaling.Rmd |only fcaR-1.1.0/fcaR/inst/doc/conceptual-scaling.html |only fcaR-1.1.0/fcaR/inst/doc/extending_equivalence.html | 269 ----- fcaR-1.1.0/fcaR/inst/doc/implications.R | 32 fcaR-1.1.0/fcaR/inst/doc/implications.Rmd | 47 fcaR-1.1.0/fcaR/inst/doc/implications.html | 417 ++------ fcaR-1.1.0/fcaR/man/Concept.Rd |only fcaR-1.1.0/fcaR/man/ConceptLattice.Rd | 215 +--- fcaR-1.1.0/fcaR/man/ConceptSet.Rd |only fcaR-1.1.0/fcaR/man/FormalContext.Rd | 235 ++++ fcaR-1.1.0/fcaR/man/ImplicationSet.Rd | 20 fcaR-1.1.0/fcaR/man/Set.Rd |only fcaR-1.1.0/fcaR/man/as_Set.Rd |only fcaR-1.1.0/fcaR/man/as_vector.Rd | 8 fcaR-1.1.0/fcaR/man/cobre32.Rd | 2 fcaR-1.1.0/fcaR/man/cobre61.Rd | 2 fcaR-1.1.0/fcaR/man/fcaR.Rd | 4 fcaR-1.1.0/fcaR/man/figures/README-unnamed-chunk-4-1.png |binary fcaR-1.1.0/fcaR/man/grapes-and-grapes.Rd |only fcaR-1.1.0/fcaR/man/grapes-entails-grapes.Rd |only fcaR-1.1.0/fcaR/man/grapes-equals-grapes.Rd | 8 fcaR-1.1.0/fcaR/man/grapes-grapes.Rd |only fcaR-1.1.0/fcaR/man/grapes-holds_in-grapes.Rd |only fcaR-1.1.0/fcaR/man/grapes-less-than-equals-grapes.Rd | 8 fcaR-1.1.0/fcaR/man/grapes-or-grapes.Rd |only fcaR-1.1.0/fcaR/man/grapes-respects-grapes.Rd |only fcaR-1.1.0/fcaR/man/grapes-twiddle-grapes.Rd |only fcaR-1.1.0/fcaR/man/scalingRegistry.Rd |only fcaR-1.1.0/fcaR/man/to_latex.Rd | 2 fcaR-1.1.0/fcaR/src/RcppExports.cpp | 18 fcaR-1.1.0/fcaR/src/nextclosure.cpp | 14 fcaR-1.1.0/fcaR/src/vector_operations.cpp | 177 ++- fcaR-1.1.0/fcaR/tests/testthat/Rplots.pdf |binary fcaR-1.1.0/fcaR/tests/testthat/test-concept_lattice.R | 34 fcaR-1.1.0/fcaR/tests/testthat/test-formal_context.R | 153 ++ fcaR-1.1.0/fcaR/tests/testthat/test-implication_set.R | 123 ++ fcaR-1.1.0/fcaR/tests/testthat/test-many_valued.R |only fcaR-1.1.0/fcaR/tests/testthat/test-sparse_set.R | 60 - fcaR-1.1.0/fcaR/vignettes/concept_lattice.Rmd | 47 fcaR-1.1.0/fcaR/vignettes/conceptual-scaling.Rmd |only fcaR-1.1.0/fcaR/vignettes/implications.Rmd | 47 95 files changed, 3021 insertions(+), 2110 deletions(-)
Title: Authentication Management for 'Shiny' Applications
Description: Simple and secure authentification mechanism for single 'Shiny' applications.
Credentials are stored in an encrypted 'SQLite' database. Source code of main application
is protected until authentication is successful.
Author: Benoit Thieurmel [aut, cre],
Victor Perrier [aut]
Maintainer: Benoit Thieurmel <benoit.thieurmel@datastorm.fr>
Diff between shinymanager versions 1.0.300 dated 2020-08-24 and 1.0.400 dated 2021-06-16
shinymanager-1.0.300/shinymanager/inst/assets/fab-button.css |only shinymanager-1.0.400/shinymanager/DESCRIPTION | 7 shinymanager-1.0.400/shinymanager/MD5 | 61 - shinymanager-1.0.400/shinymanager/NAMESPACE | 4 shinymanager-1.0.400/shinymanager/NEWS.md | 15 shinymanager-1.0.400/shinymanager/R/check_credentials.R | 4 shinymanager-1.0.400/shinymanager/R/credentials-db.R | 3 shinymanager-1.0.400/shinymanager/R/fab_button.R | 174 ++- shinymanager-1.0.400/shinymanager/R/language.R | 463 +++++++++- shinymanager-1.0.400/shinymanager/R/module-admin.R | 142 ++- shinymanager-1.0.400/shinymanager/R/module-auth.R | 81 + shinymanager-1.0.400/shinymanager/R/module-edit_user.R | 143 ++- shinymanager-1.0.400/shinymanager/R/modules-logs.R | 32 shinymanager-1.0.400/shinymanager/R/secure-app.R | 139 +-- shinymanager-1.0.400/shinymanager/R/shiny-utils.R | 24 shinymanager-1.0.400/shinymanager/R/tokens.R | 2 shinymanager-1.0.400/shinymanager/R/utils.R | 29 shinymanager-1.0.400/shinymanager/README.md | 27 shinymanager-1.0.400/shinymanager/build/vignette.rds |binary shinymanager-1.0.400/shinymanager/inst/assets/fab-button |only shinymanager-1.0.400/shinymanager/inst/doc/SQLite_Admin.html | 318 +----- shinymanager-1.0.400/shinymanager/man/check_credentials.Rd | 3 shinymanager-1.0.400/shinymanager/man/custom-labels.Rd | 2 shinymanager-1.0.400/shinymanager/man/db-crypted.Rd | 3 shinymanager-1.0.400/shinymanager/man/fab_button.Rd | 103 +- shinymanager-1.0.400/shinymanager/man/module-authentication.Rd | 16 shinymanager-1.0.400/shinymanager/man/secure-app.Rd | 26 shinymanager-1.0.400/shinymanager/man/use_language.Rd |only shinymanager-1.0.400/shinymanager/tests/testthat/test-language.R | 2 shinymanager-1.0.400/shinymanager/tests/testthat/test-modules-ui.R | 4 30 files changed, 1195 insertions(+), 632 deletions(-)
Title: Processing Regional Statistics
Description: Validating sub-national statistical typologies, re-coding across
standard typologies of sub-national statistics, and making valid aggregate
level imputation, re-aggregation, re-weighting and projection down to
lower hierarchical levels to create meaningful data panels and time series.
Author: Daniel Antal [aut, cre] (<https://orcid.org/0000-0001-7513-6760>),
Kasia Kulma [ctb] (<https://orcid.org/0000-0002-2952-9720>),
Istvan Zsoldos [ctb] (<https://orcid.org/0000-0001-5712-2103>),
Leo Lahti [ctb] (<https://orcid.org/0000-0001-5537-637X>)
Maintainer: Daniel Antal <daniel.antal@ceemid.eu>
Diff between regions versions 0.1.5 dated 2020-06-23 and 0.1.7 dated 2021-06-16
regions-0.1.5/regions/R/data-daily_internet.R |only regions-0.1.5/regions/inst/doc/google_mobility_report.R |only regions-0.1.5/regions/inst/doc/google_mobility_report.Rmd |only regions-0.1.5/regions/inst/doc/google_mobility_report.html |only regions-0.1.5/regions/man/figures/README-pressure-1.png |only regions-0.1.5/regions/vignettes/google_mobility_report.Rmd |only regions-0.1.7/regions/DESCRIPTION | 34 regions-0.1.7/regions/MD5 | 117 +- regions-0.1.7/regions/NAMESPACE | 8 regions-0.1.7/regions/NEWS.md | 18 regions-0.1.7/regions/R/assertions.R |only regions-0.1.7/regions/R/data-all_valid_nuts_codes.R | 2 regions-0.1.7/regions/R/data-daily_internet_users.R |only regions-0.1.7/regions/R/data-federal_states.R | 2 regions-0.1.7/regions/R/data-google_nuts_matchtable.R | 26 regions-0.1.7/regions/R/data-mixed_nuts_example.R | 6 regions-0.1.7/regions/R/data-nuts_changes.R | 4 regions-0.1.7/regions/R/data-nuts_lau_2019.R | 8 regions-0.1.7/regions/R/data-nuts_recoded.R | 4 regions-0.1.7/regions/R/data-regional_rd_personnel.R |only regions-0.1.7/regions/R/get_country_code.R | 35 regions-0.1.7/regions/R/impute_down.R | 233 +++-- regions-0.1.7/regions/R/impute_down_nuts.R | 291 +++---- regions-0.1.7/regions/R/recode_nuts.R | 309 ++++--- regions-0.1.7/regions/R/regions.R | 24 regions-0.1.7/regions/R/utils.R | 148 ++- regions-0.1.7/regions/R/validate_geo_code.R |only regions-0.1.7/regions/R/validate_nuts_countries.R | 82 +- regions-0.1.7/regions/R/validate_nuts_regions.R | 226 ++--- regions-0.1.7/regions/README.md | 231 +++-- regions-0.1.7/regions/build/vignette.rds |binary regions-0.1.7/regions/data/regional_rd_personnel.rda |only regions-0.1.7/regions/inst/WORDLIST | 120 +-- regions-0.1.7/regions/inst/doc/Regional_stats.R | 17 regions-0.1.7/regions/inst/doc/Regional_stats.Rmd | 24 regions-0.1.7/regions/inst/doc/Regional_stats.html | 294 +------ regions-0.1.7/regions/inst/doc/mapping.R |only regions-0.1.7/regions/inst/doc/mapping.Rmd |only regions-0.1.7/regions/inst/doc/mapping.html |only regions-0.1.7/regions/inst/doc/recode.R | 42 - regions-0.1.7/regions/inst/doc/recode.Rmd | 43 - regions-0.1.7/regions/inst/doc/recode.html | 391 ++-------- regions-0.1.7/regions/inst/doc/validation.R | 4 regions-0.1.7/regions/inst/doc/validation.Rmd | 6 regions-0.1.7/regions/inst/doc/validation.html | 282 +------ regions-0.1.7/regions/man/daily_internet_users.Rd | 4 regions-0.1.7/regions/man/figures/indicator_with_map.png |only regions-0.1.7/regions/man/figures/recoded_indicator_with_map.png |only regions-0.1.7/regions/man/impute_down_nuts.Rd | 140 +-- regions-0.1.7/regions/man/recode_nuts.Rd | 6 regions-0.1.7/regions/man/regional_rd_personnel.Rd |only regions-0.1.7/regions/man/validate_data_frame.Rd | 33 regions-0.1.7/regions/man/validate_geo_code.Rd |only regions-0.1.7/regions/man/validate_nuts_countries.Rd | 6 regions-0.1.7/regions/man/validate_nuts_regions.Rd | 138 +-- regions-0.1.7/regions/man/validate_param.Rd |only regions-0.1.7/regions/man/validate_parameters.Rd |only regions-0.1.7/regions/man/validate_typology.Rd |only regions-0.1.7/regions/tests/spelling.R |only regions-0.1.7/regions/tests/testthat/test-assertions.R |only regions-0.1.7/regions/tests/testthat/test-get_country_code.R | 6 regions-0.1.7/regions/tests/testthat/test-impute_down.R | 322 ++++---- regions-0.1.7/regions/tests/testthat/test-impute_down_nuts.R | 55 - regions-0.1.7/regions/tests/testthat/test-recode_nuts.R | 82 +- regions-0.1.7/regions/tests/testthat/test-validate_geo_code.R |only regions-0.1.7/regions/tests/testthat/test-validate_nuts_countries.R | 94 +- regions-0.1.7/regions/tests/testthat/test-validate_nuts_regions.R | 67 - regions-0.1.7/regions/vignettes/Regional_stats.Rmd | 24 regions-0.1.7/regions/vignettes/indicator_with_map.png |only regions-0.1.7/regions/vignettes/mapping.Rmd |only regions-0.1.7/regions/vignettes/recode.Rmd | 43 - regions-0.1.7/regions/vignettes/recoded_indicator_with_map.png |only regions-0.1.7/regions/vignettes/validation.Rmd | 6 73 files changed, 1946 insertions(+), 2111 deletions(-)
Title: The Induced Smoothed Lasso
Description: An implementation of the induced smoothing (IS) idea to lasso regularization models to allow estimation and inference on the model coefficients (currently hypothesis testing only). Linear, logistic, Poisson and gamma regressions with several link functions are implemented. The algorithm is described in the original paper: Cilluffo, G., Sottile, G., La Grutta, S. and Muggeo, V. (2019) The Induced Smoothed lasso: A practical framework for hypothesis testing in high dimensional regression. <doi:10.1177/0962280219842890>, and discussed in a tutorial: Sottile, G., Cilluffo, G., and Muggeo, V. (2019) The R package islasso: estimation and hypothesis testing in lasso regression. <doi:10.13140/RG.2.2.16360.11521>.
Author: Gianluca Sottile [aut, cre],
Giovanna Cilluffo [aut, ctb],
Vito MR Muggeo [aut, cre]
Maintainer: Gianluca Sottile <gianluca.sottile@unipa.it>
Diff between islasso versions 1.3.0 dated 2021-05-24 and 1.3.1 dated 2021-06-16
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS | 5 +++++ R/islasso.R | 2 +- inst/doc/islasso.pdf |binary man/islasso-package.Rd | 2 +- src/dev_grad_hess.f90 | 8 ++++---- src/init.c | 2 +- src/islasso.h | 2 +- src/islasso2.f90 | 4 ++-- 10 files changed, 28 insertions(+), 23 deletions(-)
More information about rmarchingcubes at CRAN
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More information about Tratamentos.ad at CRAN
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Title: Thematic Maps
Description: Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps.
Author: Martijn Tennekes [aut, cre],
Jakub Nowosad [ctb],
Joel Gombin [ctb],
Sebastian Jeworutzki [ctb],
Kent Russell [ctb],
Richard Zijdeman [ctb],
John Clouse [ctb],
Robin Lovelace [ctb],
Jannes Muenchow [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap versions 3.3-1 dated 2021-03-15 and 3.3-2 dated 2021-06-16
DESCRIPTION | 10 MD5 | 45 +- NEWS | 3 R/plot_legend_hist.R | 4 R/pre_check_shape.R | 57 +- R/pre_gather_shape_info.R | 2 R/pre_process_shapes.R | 9 R/process_facet_layout.R | 1 R/qtm.R | 4 R/tmap_save.R | 6 R/view_format_popups.R | 25 - build/fix_world.R |only build/partial.rdb |binary build/vignette.rds |binary data/World.rda |binary inst/doc/tmap-JSS-code.html | 882 ++++++++++++++++-------------------------- inst/doc/tmap-changes.html | 332 +++------------ inst/doc/tmap-getstarted.html | 446 +++++---------------- man/qtm.Rd | 6 man/tm_layout.Rd | 4 man/tm_polygons.Rd | 4 man/tm_shape.Rd | 18 man/tmap_animation.Rd | 2 man/tmap_save.Rd | 2 24 files changed, 647 insertions(+), 1215 deletions(-)
Title: Hierarchical GxE Interactions in a Regularized Regression Model
Description: The method focuses on a single environmental exposure and induces
a main-effect-before-interaction hierarchical structure for the joint selection of interaction terms
in a regularized regression model. For details see Zemlianskaia et al. (2021) <arxiv:2103.13510>.
Author: Natalia Zemlianskaia
Maintainer: Natalia Zemlianskaia <natasha.zemlianskaia@gmail.com>
Diff between gesso versions 1.0.0 dated 2021-06-07 and 1.0.1 dated 2021-06-16
DESCRIPTION | 8 MD5 | 22 +- R/gesso.R | 31 ++- build/partial.rdb |binary inst/doc/vignette.R | 24 +- inst/doc/vignette.Rmd | 69 ++++---- inst/doc/vignette.html | 258 +++++++++++++++--------------- man/gesso.cv.Rd | 7 man/gesso.fit.Rd | 15 + tests/testthat/test-compare_with_glmnet.R | 4 tests/testthat/test-normalize.R | 4 vignettes/vignette.Rmd | 69 ++++---- 12 files changed, 277 insertions(+), 234 deletions(-)
Title: Dynamic Extensions for Network Objects
Description: Simple interface routines to facilitate the handling of network objects with complex intertemporal data. This is a part of the "statnet" suite of packages for network analysis.
Author: Carter T. Butts [aut],
Ayn Leslie-Cook [aut],
Pavel N. Krivitsky [aut],
Skye Bender-deMoll [aut, cre],
Zack Almquist [ctb],
David R. Hunter [ctb],
Li Wang [ctb],
Kirk Li [ctb],
Steven M. Goodreau [ctb],
Jeffrey Horner [ctb],
Martina Morris [ctb]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Diff between networkDynamic versions 0.10.1 dated 2020-01-21 and 0.11.0 dated 2021-06-16
ChangeLog | 2 ++ DESCRIPTION | 10 +++++----- MD5 | 28 ++++++++++++++-------------- NAMESPACE | 6 +++++- R/tea_utils.R | 13 ++++++++----- README.md | 4 ++-- build/vignette.rds |binary inst/doc/networkDynamic.pdf |binary man/Newcomb.Rd | 4 ++-- man/activate.Rd | 2 +- man/activity.attribute.Rd | 2 +- man/add.methods.networkDynamic.Rd | 2 +- man/classrooms.Rd | 2 +- man/network.extensions.Rd | 4 ++-- man/tea_functions.Rd | 34 +++++++++++++++++++++------------- 15 files changed, 65 insertions(+), 48 deletions(-)
More information about networkDynamic at CRAN
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Title: Simplified Statistics for PA 606
Description: Simplifies functions assess normality for bivariate and multivariate statistical techniques, including hst(), box(), and qq(). Plots designed to replicate those that would result from similar calls in 'SPSS'. Also includes simplified formulae, such as mode(), scatter(), and ow.anova().
Author: Burrel Vann Jr [aut, cre]
Maintainer: Burrel Vann Jr <bvannjr@sdsu.edu>
Diff between vannstats versions 1.0.4.15 dated 2021-04-16 and 1.0.7.15 dated 2021-06-16
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++++---- NAMESPACE | 6 ++++++ R/cormat.R |only R/data.R | 2 +- R/residplot.R |only man/GSS2014.Rd | 2 +- man/cormat.Rd |only man/residplot.Rd |only 9 files changed, 20 insertions(+), 10 deletions(-)
Title: Easily Customize Interactive Tables Made with Reactable
Description: Enhance the styling of interactive reactable tables with easy-to-use
and highly-customizable functions. Apply conditional formatting to cells with
data bars, color scales, and icon sets. Utilize custom table themes inspired by
popular websites and bootstrap themes. Increase the portability and reproducibility
of reactable tables by embedding images from the web directly into cells.
Save the final table output as a static image or interactive file
(note this feature requires the 'webshot2' package which can
be downloaded from <https://github.com/rstudio/webshot2>).
Author: Kyle Cuilla [aut, cre, cph],
Greg Lin [ctb],
June Choe [ctb]
Maintainer: Kyle Cuilla <kyle.cuilla@gmail.com>
Diff between reactablefmtr versions 0.2.0 dated 2021-03-18 and 1.0.0 dated 2021-06-16
DESCRIPTION | 24 MD5 | 73 ++ NAMESPACE | 31 + NEWS.md | 82 +++ R/color_scales.R | 140 ++++- R/color_tiles.R | 166 +++++- R/data_bars.R | 1085 ++++++++++++++++++++++++++++++++++++++++--- R/data_bars_gradient.R | 32 - R/data_bars_pos_neg.R | 29 - R/embed_img.R | 47 + R/icon_assign.R | 121 ++++ R/icon_sets.R | 263 ++++++++-- R/save_reactable.R |only R/table_elements.R |only R/themes.R |only README.md | 378 ++++---------- man/add_source.Rd |only man/add_subtitle.Rd |only man/add_title.Rd |only man/cerulean.Rd |only man/clean.Rd |only man/color_scales.Rd | 52 +- man/color_tiles.Rd | 52 +- man/cosmo.Rd |only man/cyborg.Rd |only man/darkly.Rd |only man/data_bars.Rd | 194 ++++++- man/data_bars_gradient.Rd | 30 - man/data_bars_pos_neg.Rd | 27 - man/default.Rd |only man/embed_img.Rd | 16 man/espn.Rd |only man/fivethirtyeight.Rd |only man/flatly.Rd |only man/hoverdark.Rd |only man/hoverlight.Rd |only man/icon_assign.Rd | 29 - man/icon_sets.Rd | 53 +- man/journal.Rd |only man/lux.Rd |only man/midnight.Rd |only man/midnightblue.Rd |only man/minty.Rd |only man/nytimes.Rd |only man/pff.Rd |only man/reactablefmtr-package.Rd | 12 man/sandstone.Rd |only man/save_reactable.Rd |only man/slate.Rd |only man/spacelab.Rd |only man/sunrise.Rd |only man/superhero.Rd |only man/void.Rd |only 53 files changed, 2323 insertions(+), 613 deletions(-)
Title: Read, Write and Edit xlsx Files
Description: Simplifies the creation of Excel .xlsx files by
providing a high level interface to writing, styling and editing
worksheets. Through the use of 'Rcpp', read/write times are comparable
to the 'xlsx' and 'XLConnect' packages with the added benefit of
removing the dependency on Java.
Author: Philipp Schauberger [aut, cre],
Alexander Walker [aut],
Luca Braglia [ctb],
Joshua Sturm [ctb],
Jan Marvin Garbuszus [ctb],
Jordan Mark Barbone [ctb] (<https://orcid.org/0000-0001-9788-3628>)
Maintainer: Philipp Schauberger <philipp@schauberger.co.at>
Diff between openxlsx versions 4.2.3 dated 2020-10-27 and 4.2.4 dated 2021-06-16
openxlsx-4.2.3/openxlsx/src/openxlsx_init.c |only openxlsx-4.2.4/openxlsx/DESCRIPTION | 39 openxlsx-4.2.4/openxlsx/MD5 | 167 openxlsx-4.2.4/openxlsx/NAMESPACE | 8 openxlsx-4.2.4/openxlsx/NEWS.md | 33 openxlsx-4.2.4/openxlsx/R/CommentClass.R | 4 openxlsx-4.2.4/openxlsx/R/HyperlinkClass.R | 2 openxlsx-4.2.4/openxlsx/R/RcppExports.R | 5 openxlsx-4.2.4/openxlsx/R/WorkbookClass.R |14396 ---------- openxlsx-4.2.4/openxlsx/R/asserts.R |only openxlsx-4.2.4/openxlsx/R/borderFunctions.R | 94 openxlsx-4.2.4/openxlsx/R/build_workbook.R |only openxlsx-4.2.4/openxlsx/R/class_definitions.R | 19 openxlsx-4.2.4/openxlsx/R/conditional_formatting.R | 122 openxlsx-4.2.4/openxlsx/R/data-fontSizeLookupTables.R |only openxlsx-4.2.4/openxlsx/R/helperFunctions.R | 418 openxlsx-4.2.4/openxlsx/R/loadWorkbook.R | 317 openxlsx-4.2.4/openxlsx/R/openXL.R | 2 openxlsx-4.2.4/openxlsx/R/openxlsx.R | 154 openxlsx-4.2.4/openxlsx/R/openxlsxCoerce.R | 2 openxlsx-4.2.4/openxlsx/R/readWorkbook.R | 655 openxlsx-4.2.4/openxlsx/R/sysdata.rda |only openxlsx-4.2.4/openxlsx/R/utils.R |only openxlsx-4.2.4/openxlsx/R/workbook_column_widths.R | 6 openxlsx-4.2.4/openxlsx/R/workbook_read_workbook.R | 2 openxlsx-4.2.4/openxlsx/R/workbook_write_data.R | 111 openxlsx-4.2.4/openxlsx/R/worksheet_class.R | 82 openxlsx-4.2.4/openxlsx/R/wrappers.R | 1405 openxlsx-4.2.4/openxlsx/R/writeData.R | 270 openxlsx-4.2.4/openxlsx/R/writeDataTable.R | 202 openxlsx-4.2.4/openxlsx/R/writexlsx.R | 521 openxlsx-4.2.4/openxlsx/R/zzz.R |only openxlsx-4.2.4/openxlsx/README.md | 5 openxlsx-4.2.4/openxlsx/build/vignette.rds |binary openxlsx-4.2.4/openxlsx/inst/doc/Formatting.html | 809 openxlsx-4.2.4/openxlsx/inst/doc/Introduction.html | 1051 openxlsx-4.2.4/openxlsx/inst/extdata/build_font_size_lookup.R | 6 openxlsx-4.2.4/openxlsx/inst/extdata/conditional_formatting_testing.R | 4 openxlsx-4.2.4/openxlsx/inst/extdata/loadPivotTables.xlsx |only openxlsx-4.2.4/openxlsx/inst/extdata/loadThreadComment.xlsx |only openxlsx-4.2.4/openxlsx/inst/extdata/load_xlsx_testing.R | 4 openxlsx-4.2.4/openxlsx/inst/extdata/namedRegions3.xlsx |only openxlsx-4.2.4/openxlsx/inst/extdata/stack_style_testing.R | 19 openxlsx-4.2.4/openxlsx/man/activeSheet.Rd |only openxlsx-4.2.4/openxlsx/man/addStyle.Rd | 2 openxlsx-4.2.4/openxlsx/man/addWorksheet.Rd | 22 openxlsx-4.2.4/openxlsx/man/buildWorkbook.Rd |only openxlsx-4.2.4/openxlsx/man/conditionalFormatting.Rd | 50 openxlsx-4.2.4/openxlsx/man/convertToDateTime.Rd | 3 openxlsx-4.2.4/openxlsx/man/createStyle.Rd | 6 openxlsx-4.2.4/openxlsx/man/if_null_then.Rd |only openxlsx-4.2.4/openxlsx/man/loadWorkbook.Rd | 2 openxlsx-4.2.4/openxlsx/man/openxlsx.Rd | 41 openxlsx-4.2.4/openxlsx/man/openxlsxFontSizeLookupTable.Rd |only openxlsx-4.2.4/openxlsx/man/openxlsx_options.Rd |only openxlsx-4.2.4/openxlsx/man/pageSetup.Rd | 10 openxlsx-4.2.4/openxlsx/man/read.xlsx.Rd | 2 openxlsx-4.2.4/openxlsx/man/saveWorkbook.Rd | 2 openxlsx-4.2.4/openxlsx/man/write.xlsx.Rd | 30 openxlsx-4.2.4/openxlsx/man/writeData.Rd | 25 openxlsx-4.2.4/openxlsx/man/writeDataTable.Rd | 24 openxlsx-4.2.4/openxlsx/man/writeFormula.Rd | 12 openxlsx-4.2.4/openxlsx/src/RcppExports.cpp | 13 openxlsx-4.2.4/openxlsx/src/helper_functions.cpp | 16 openxlsx-4.2.4/openxlsx/src/load_workbook.cpp | 91 openxlsx-4.2.4/openxlsx/src/openxlsx.h | 3 openxlsx-4.2.4/openxlsx/src/read_workbook.cpp | 7 openxlsx-4.2.4/openxlsx/src/write_file.cpp | 18 openxlsx-4.2.4/openxlsx/tests/testthat/test-Worksheet_naming.R | 5 openxlsx-4.2.4/openxlsx/tests/testthat/test-activeSheet.R |only openxlsx-4.2.4/openxlsx/tests/testthat/test-build_workbook.R |only openxlsx-4.2.4/openxlsx/tests/testthat/test-conditionalFormatting.R |only openxlsx-4.2.4/openxlsx/tests/testthat/test-date_time_conversion.R | 5 openxlsx-4.2.4/openxlsx/tests/testthat/test-deleting_tables.R | 23 openxlsx-4.2.4/openxlsx/tests/testthat/test-encoding.R | 54 openxlsx-4.2.4/openxlsx/tests/testthat/test-fill_merged_cells.R | 21 openxlsx-4.2.4/openxlsx/tests/testthat/test-fontSizeLookupTables.R |only openxlsx-4.2.4/openxlsx/tests/testthat/test-getBaseFont.R |only openxlsx-4.2.4/openxlsx/tests/testthat/test-load_read_file_read_equality.R | 4 openxlsx-4.2.4/openxlsx/tests/testthat/test-loading_workbook.R | 31 openxlsx-4.2.4/openxlsx/tests/testthat/test-named_regions.R | 61 openxlsx-4.2.4/openxlsx/tests/testthat/test-options.R |only openxlsx-4.2.4/openxlsx/tests/testthat/test-outlines.R | 10 openxlsx-4.2.4/openxlsx/tests/testthat/test-page_setup.R | 12 openxlsx-4.2.4/openxlsx/tests/testthat/test-read_from_created_wb.R | 44 openxlsx-4.2.4/openxlsx/tests/testthat/test-remove_worksheets.R | 5 openxlsx-4.2.4/openxlsx/tests/testthat/test-saveWorkbook.R | 4 openxlsx-4.2.4/openxlsx/tests/testthat/test-skip_empty_cols.R | 18 openxlsx-4.2.4/openxlsx/tests/testthat/test-skip_empty_rows.R | 17 openxlsx-4.2.4/openxlsx/tests/testthat/test-trying_to_break_openxlsx.R | 15 openxlsx-4.2.4/openxlsx/tests/testthat/test-worksheet_ordering.R | 4 openxlsx-4.2.4/openxlsx/tests/testthat/test-write_data_to_sheetData.R | 25 openxlsx-4.2.4/openxlsx/tests/testthat/test-write_read_equality.R | 133 openxlsx-4.2.4/openxlsx/tests/testthat/test-write_xlsx_vector_args.R | 115 openxlsx-4.2.4/openxlsx/tests/testthat/test-writing_sheet_data.R | 23 95 files changed, 3989 insertions(+), 17953 deletions(-)
Title: Noncompartmental Analysis for Pharmacokinetic Data
Description: Conduct a noncompartmental analysis with industrial strength.
Some features are
1) Use of CDISC SDTM terms
2) Automatic or manual slope selection
3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method
4) Interval(partial) AUCs with 'linear' or 'log' interpolation method
* Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between NonCompart versions 0.4.7 dated 2020-05-07 and 0.4.8 dated 2021-06-16
NonCompart-0.4.7/NonCompart/R/UT.R |only NonCompart-0.4.7/NonCompart/man/UT.Rd |only NonCompart-0.4.8/NonCompart/DESCRIPTION | 8 +- NonCompart-0.4.8/NonCompart/MD5 | 22 +++--- NonCompart-0.4.8/NonCompart/R/AUC.R | 4 - NonCompart-0.4.8/NonCompart/R/BestSlope.R | 4 - NonCompart-0.4.8/NonCompart/R/IntAUC.R | 4 - NonCompart-0.4.8/NonCompart/R/Interpol.R | 2 NonCompart-0.4.8/NonCompart/R/sNCA.R | 41 +++++++++---- NonCompart-0.4.8/NonCompart/R/tblNCA.R | 2 NonCompart-0.4.8/NonCompart/inst/NEWS.Rd | 6 + NonCompart-0.4.8/NonCompart/inst/doc/NonCompart-manual.pdf |binary NonCompart-0.4.8/NonCompart/man/sNCA.Rd | 3 13 files changed, 58 insertions(+), 38 deletions(-)
Title: Create Elegant Data Visualisations Using the Grammar of Graphics
Description: A system for 'declaratively' creating graphics,
based on "The Grammar of Graphics". You provide the data, tell 'ggplot2'
how to map variables to aesthetics, what graphical primitives to use,
and it takes care of the details.
Author: Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
Winston Chang [aut] (<https://orcid.org/0000-0002-1576-2126>),
Lionel Henry [aut],
Thomas Lin Pedersen [aut, cre]
(<https://orcid.org/0000-0002-5147-4711>),
Kohske Takahashi [aut],
Claus Wilke [aut] (<https://orcid.org/0000-0002-7470-9261>),
Kara Woo [aut] (<https://orcid.org/0000-0002-5125-4188>),
Hiroaki Yutani [aut] (<https://orcid.org/0000-0002-3385-7233>),
Dewey Dunnington [aut] (<https://orcid.org/0000-0002-9415-4582>),
RStudio [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@rstudio.com>
Diff between ggplot2 versions 3.3.3 dated 2020-12-30 and 3.3.4 dated 2021-06-16
ggplot2-3.3.3/ggplot2/man/geom_bin2d.Rd |only ggplot2-3.3.3/ggplot2/tests/figs/geom-dotplot/bin-y-dodging-3-stackgroups-histodot-currently-broken.svg |only ggplot2-3.3.3/ggplot2/tests/testthat/test-conditions.R |only ggplot2-3.3.4/ggplot2/DESCRIPTION | 22 ggplot2-3.3.4/ggplot2/MD5 | 479 +++++----- ggplot2-3.3.4/ggplot2/NAMESPACE | 8 ggplot2-3.3.4/ggplot2/NEWS.md | 159 +++ ggplot2-3.3.4/ggplot2/R/aes-colour-fill-alpha.r | 7 ggplot2-3.3.4/ggplot2/R/aes.r | 2 ggplot2-3.3.4/ggplot2/R/annotation-custom.r | 2 ggplot2-3.3.4/ggplot2/R/annotation-logticks.r | 11 ggplot2-3.3.4/ggplot2/R/annotation-map.r | 73 + ggplot2-3.3.4/ggplot2/R/axis-secondary.R | 96 +- ggplot2-3.3.4/ggplot2/R/bin.R | 6 ggplot2-3.3.4/ggplot2/R/coord-.r | 2 ggplot2-3.3.4/ggplot2/R/coord-flip.r | 2 ggplot2-3.3.4/ggplot2/R/coord-map.r | 3 ggplot2-3.3.4/ggplot2/R/coord-polar.r | 2 ggplot2-3.3.4/ggplot2/R/coord-sf.R | 290 +++++- ggplot2-3.3.4/ggplot2/R/data.R | 39 ggplot2-3.3.4/ggplot2/R/facet-.r | 31 ggplot2-3.3.4/ggplot2/R/facet-grid-.r | 14 ggplot2-3.3.4/ggplot2/R/facet-null.r | 2 ggplot2-3.3.4/ggplot2/R/facet-wrap.r | 17 ggplot2-3.3.4/ggplot2/R/fortify-map.r | 6 ggplot2-3.3.4/ggplot2/R/fortify.r | 12 ggplot2-3.3.4/ggplot2/R/geom-.r | 6 ggplot2-3.3.4/ggplot2/R/geom-abline.r | 6 ggplot2-3.3.4/ggplot2/R/geom-bin2d.r | 18 ggplot2-3.3.4/ggplot2/R/geom-boxplot.r | 2 ggplot2-3.3.4/ggplot2/R/geom-contour.r | 38 ggplot2-3.3.4/ggplot2/R/geom-count.r | 2 ggplot2-3.3.4/ggplot2/R/geom-density.r | 2 ggplot2-3.3.4/ggplot2/R/geom-density2d.r | 2 ggplot2-3.3.4/ggplot2/R/geom-dotplot.r | 32 ggplot2-3.3.4/ggplot2/R/geom-errorbarh.r | 7 ggplot2-3.3.4/ggplot2/R/geom-function.R | 11 ggplot2-3.3.4/ggplot2/R/geom-hex.r | 4 ggplot2-3.3.4/ggplot2/R/geom-histogram.r | 30 ggplot2-3.3.4/ggplot2/R/geom-jitter.r | 12 ggplot2-3.3.4/ggplot2/R/geom-path.r | 2 ggplot2-3.3.4/ggplot2/R/geom-point.r | 12 ggplot2-3.3.4/ggplot2/R/geom-polygon.r | 2 ggplot2-3.3.4/ggplot2/R/geom-quantile.r | 6 ggplot2-3.3.4/ggplot2/R/geom-rug.r | 15 ggplot2-3.3.4/ggplot2/R/geom-segment.r | 4 ggplot2-3.3.4/ggplot2/R/geom-sf.R | 37 ggplot2-3.3.4/ggplot2/R/geom-text.r | 77 + ggplot2-3.3.4/ggplot2/R/geom-tile.r | 22 ggplot2-3.3.4/ggplot2/R/geom-violin.r | 17 ggplot2-3.3.4/ggplot2/R/ggplot-global.R | 11 ggplot2-3.3.4/ggplot2/R/ggproto.r | 4 ggplot2-3.3.4/ggplot2/R/grouping.r | 2 ggplot2-3.3.4/ggplot2/R/guide-bins.R | 15 ggplot2-3.3.4/ggplot2/R/guide-colorbar.r | 9 ggplot2-3.3.4/ggplot2/R/guide-colorsteps.R | 1 ggplot2-3.3.4/ggplot2/R/guide-legend.r | 28 ggplot2-3.3.4/ggplot2/R/guides-.r | 38 ggplot2-3.3.4/ggplot2/R/guides-axis.r | 14 ggplot2-3.3.4/ggplot2/R/labeller.r | 21 ggplot2-3.3.4/ggplot2/R/labels.r | 157 +++ ggplot2-3.3.4/ggplot2/R/layer-sf.R | 32 ggplot2-3.3.4/ggplot2/R/layer.r | 52 - ggplot2-3.3.4/ggplot2/R/limits.r | 2 ggplot2-3.3.4/ggplot2/R/performance.R | 7 ggplot2-3.3.4/ggplot2/R/plot-build.r | 32 ggplot2-3.3.4/ggplot2/R/plot-construction.r | 16 ggplot2-3.3.4/ggplot2/R/plot.r | 6 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Title: Shared, Joint (Generalized) Frailty Models; Surrogate Endpoints
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package:
1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied.
2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope).
3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects.
4) Joint frailty models in the context of the joint modelling for recurrent events with terminal event for clustered data or not. A joint frailty model for two semi-competing risks and clustered data is also proposed.
5) Joint general frailty models in the context of the joint modelling for recurrent events with terminal event data with two independent frailty terms.
6) Joint Nested frailty models in the context of the joint modelling for recurrent events with terminal event, for hierarchically clustered data (with two levels of clustering) by including two iid gamma random effects.
7) Multivariate joint frailty models for two types of recurrent events and a terminal event.
8) Joint models for longitudinal data and a terminal event.
9) Trivariate joint models for longitudinal data, recurrent events and a terminal event.
10) Joint frailty models for the validation of surrogate endpoints in multiple randomized clinical trials with failure-time endpoints
11) Conditional and Marginal two-part joint models for longitudinal semicontinuous data and a terminal event.
12) Joint frailty-copula models for the validation of surrogate endpoints in multiple randomized clinical trials with failure-time endpoints.
13) Generalized shared and joint frailty models for recurrent and terminal events. Proportional hazards (PH), additive hazard (AH), proportional odds (PO) and probit models are available in a fully parametric framework. For PH and AH models, it is possible to consider type-varying coefficients and flexible semiparametric hazard function.
Prediction values are available (for a terminal event or for a new recurrent event). Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have the gamma or normal distribution. Now, you can also consider time-varying covariates effects in Cox, shared and joint frailty models (1-5). The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Moreover, the package can be used with its shiny application, in a local mode or by following the link below.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey
Mauguen, Amadou Diakite, Alexandre Laurent, Myriam Lopez,
Agnieszka Krol, Casimir L. Sofeu, Julien Dumerc, Denis Rustand,
Jocelyn Chauvet
Maintainer: Virginie Rondeau <virginie.rondeau@u-bordeaux.fr>
Diff between frailtypack versions 3.3.2 dated 2020-10-14 and 3.4.0 dated 2021-06-16
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Title: Fair Models in Machine Learning
Description: Fair machine learning regression models which take sensitive attributes into account in
model estimation. Currently implementing Komiyama et al. (2018)
<http://proceedings.mlr.press/v80/komiyama18a/komiyama18a.pdf>, Zafar et al.
(2019) <https://www.jmlr.org/papers/volume20/18-262/18-262.pdf> and my own
approach that uses ridge regression to enforce fairness.
Author: Marco Scutari [aut, cre]
Maintainer: Marco Scutari <marco.scutari@gmail.com>
Diff between fairml versions 0.4 dated 2021-04-15 and 0.5 dated 2021-06-16
fairml-0.4/fairml/R/print-and-summary.R |only fairml-0.5/fairml/Changelog | 23 + fairml-0.5/fairml/DESCRIPTION | 17 fairml-0.5/fairml/LICENSE | 2 fairml-0.5/fairml/MD5 | 63 +-- fairml-0.5/fairml/NAMESPACE | 11 fairml-0.5/fairml/R/crossvalidation.R | 190 +++++++-- fairml-0.5/fairml/R/deviance-and-likelihood.R | 13 fairml-0.5/fairml/R/frrm.R | 164 ++++++-- fairml-0.5/fairml/R/getters.R | 25 + fairml-0.5/fairml/R/globals.R | 34 + fairml-0.5/fairml/R/nclm.R | 159 ++----- fairml-0.5/fairml/R/parallel.R |only fairml-0.5/fairml/R/predict.R | 56 ++ fairml-0.5/fairml/R/print.R |only fairml-0.5/fairml/R/profile-plots.R | 360 ++++++++++++++---- fairml-0.5/fairml/R/sanitization-arguments.R | 22 - fairml-0.5/fairml/R/sanitization-data.R | 33 + fairml-0.5/fairml/R/summary.R |only fairml-0.5/fairml/R/two-stage-regression.R |only fairml-0.5/fairml/R/utils.R | 19 fairml-0.5/fairml/R/zlrm.R |only fairml-0.5/fairml/data/adult.rda |only fairml-0.5/fairml/data/bank.rda |only fairml-0.5/fairml/data/vuc.test.rda |only fairml-0.5/fairml/man/adult.Rd |only fairml-0.5/fairml/man/bank.Rd |only fairml-0.5/fairml/man/communities.and.crime.Rd | 2 fairml-0.5/fairml/man/compas.Rd | 4 fairml-0.5/fairml/man/fairml-package.Rd | 13 fairml-0.5/fairml/man/fairml.cv.Rd | 19 fairml-0.5/fairml/man/fairness.profile.plot.Rd | 67 ++- fairml-0.5/fairml/man/frrm.Rd | 31 + fairml-0.5/fairml/man/german.credit.Rd | 2 fairml-0.5/fairml/man/methods.Rd | 27 + fairml-0.5/fairml/man/national.longitudinal.survey.Rd | 4 fairml-0.5/fairml/man/nclm.Rd | 16 fairml-0.5/fairml/man/vuc.Rd |only fairml-0.5/fairml/man/zlrm.Rd |only 39 files changed, 1037 insertions(+), 339 deletions(-)
Title: Additional Families for Generalized Linear Models
Description: Creates family objects identical to stats
family but for new links.
Author: Greg McMahan
Maintainer: Greg McMahan <gmcmacran@gmail.com>
Diff between extendedFamily versions 0.2.0 dated 2021-01-20 and 0.2.1 dated 2021-06-16
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 3 +++ README.md | 47 ++++++++++++----------------------------------- 4 files changed, 21 insertions(+), 41 deletions(-)
More information about extendedFamily at CRAN
Permanent link