Title: Spatial Capture-Recapture (SCR) Methods Using 'nimble'
Description: Provides utility functions, distributions, and methods for improving Markov chain Monte Carlo (MCMC) sampling efficiency for ecological Spatial Capture-Recapture (SCR) and Open Population Spatial Capture-Recapture (OPSCR) models. The methods provided implement the techniques presented in "Estimation of Large-Scale Spatial Capture-Recapture Models" (Turek, et al (2021); Eco-sphere 12(2):e03385. <doi:10.1002/ecs2.3385>).
Author: Richard Bischof [aut],
Daniel Turek [aut, cre],
Cyril Milleret [aut],
Torbjørn Ergon [aut],
Pierre Dupont [aut],
Soumen Dey [aut],
Wei Zhang [aut],
Perry de Valpine [aut]
Maintainer: Daniel Turek <danielturek@gmail.com>
Diff between nimbleSCR versions 0.1.2 dated 2021-07-01 and 0.1.3 dated 2021-10-25
DESCRIPTION | 26 + MD5 | 93 +++-- NAMESPACE | 41 ++ R/calcWindowSizes.R |only R/dbernppAC.R |only R/dbernppACmovement_exp.R |only R/dbernppACmovement_normal.R |only R/dbernppDetection_normal.R |only R/dbernppLocalACmovement_exp.R |only R/dbernppLocalACmovement_normal.R |only R/dbernppLocalDetection_normal.R |only R/dbinomLocal_normal.R | 2 R/dnormalizer.R |only R/dpoisLocal_normal.R | 4 R/dpoisppAC.R |only R/dpoisppDetection_normal.R |only R/dpoisppLocalDetection_normal.R |only R/getLocalObjects.R | 8 R/getMidPointNodes.R |only R/getSparseY.R | 4 R/getWindowCoords.R |only R/getWindowIndex.R |only R/integrateIntensityLocal_exp.R |only R/integrateIntensityLocal_normal.R |only R/integrateIntensity_exp.R |only R/integrateIntensity_normal.R |only R/makeConstantNimbleFunction.R |only R/marginalVoidProbIntegrand.R |only R/marginalVoidProbNumIntegration.R |only R/scaleCoordsToHabitatGrid.R | 2 R/stratRejectionSampler_exp.R |only R/stratRejectionSampler_normal.R |only R/zzz.R | 186 +++++++++- build/vignette.rds |binary inst/NEWS |only inst/doc/Point_Process.R |only inst/doc/Point_Process.Rmd |only inst/doc/Point_Process.html |only inst/doc/Simulate_and_fit_SCR_models_with_dbinomLocal_normal.Rmd | 4 inst/doc/Simulate_and_fit_SCR_models_with_dbinomLocal_normal.html | 10 inst/doc/wolverine_example.html | 4 inst/extdata/pointProcess_samples.RData |only inst/extdata/pointProcess_samples1.RData |only man/calcWindowSizes.Rd |only man/dbernppAC.Rd |only man/dbernppACmovement_exp.Rd |only man/dbernppACmovement_normal.Rd |only man/dbernppDetection_normal.Rd |only man/dbernppLocalACmovement_exp.Rd |only man/dbernppLocalACmovement_normal.Rd |only man/dbernppLocalDetection_normal.Rd |only man/dbinomLocal_normal.Rd | 2 man/dnormalizer.Rd |only man/dpoisLocal_normal.Rd | 4 man/dpoisppAC.Rd |only man/dpoisppDetection_normal.Rd |only man/dpoisppLocalDetection_normal.Rd |only man/getLocalObjects.Rd | 6 man/getMidPointNodes.Rd |only man/getSparseY.Rd | 2 man/getWindowCoords.Rd |only man/getWindowIndex.Rd |only man/integrateIntensityLocal_exp.Rd |only man/integrateIntensityLocal_normal.Rd |only man/integrateIntensity_exp.Rd |only man/integrateIntensity_normal.Rd |only man/makeConstantNimbleFunction.Rd |only man/marginalVoidProbIntegrand.Rd |only man/marginalVoidProbNumIntegration.Rd |only man/stratRejectionSampler_exp.Rd |only man/stratRejectionSampler_normal.Rd |only tests/testthat/test-dbinomLocal_normal.R | 9 vignettes/Point_Process.Rmd |only vignettes/Simulate_and_fit_SCR_models_with_dbinomLocal_normal.Rmd | 4 vignettes/references.bib | 10 75 files changed, 363 insertions(+), 58 deletions(-)
Title: Toolkit for Weighting and Analysis of Nonequivalent Groups
Description: Provides functions for propensity score
estimating and weighting, nonresponse weighting, and diagnosis
of the weights.
Author: Matthew Cefalu <Matthew_Cefalu@rand.org>, Greg Ridgeway, Dan McCaffrey, Andrew Morral, Beth Ann Griffin, and Lane Burgette
Maintainer: Matthew Cefalu <Matthew_Cefalu@rand.org>
Diff between twang versions 2.4 dated 2021-07-26 and 2.5 dated 2021-10-25
DESCRIPTION | 10 +- MD5 | 16 +-- build/vignette.rds |binary inst/doc/iptw.pdf |binary inst/doc/mnps.pdf |binary inst/doc/twang.R | 170 ++++++++--------------------------------- inst/doc/twang.pdf |binary inst/doc/twang.rnw | 212 ++++++++++++++++++++++++++-------------------------- vignettes/twang.rnw | 212 ++++++++++++++++++++++++++-------------------------- 9 files changed, 258 insertions(+), 362 deletions(-)
Title: Multivariate Normal Functions for Sparse Covariance and
Precision Matrices
Description: Computes multivariate normal (MVN) densities, and
samples from MVN distributions, when the covariance or
precision matrix is sparse.
Author: Michael Braun [aut, cre, cph] (<https://orcid.org/0000-0003-4774-2119>)
Maintainer: Michael Braun <braunm@smu.edu>
Diff between sparseMVN versions 0.2.1.1 dated 2018-03-26 and 0.2.2 dated 2021-10-25
sparseMVN-0.2.1.1/sparseMVN/inst/doc/sparseMVN.R |only sparseMVN-0.2.1.1/sparseMVN/inst/doc/sparseMVN.Rnw |only sparseMVN-0.2.1.1/sparseMVN/inst/doc/sparseMVN.bib |only sparseMVN-0.2.1.1/sparseMVN/inst/doc/sparseMVN.pdf |only sparseMVN-0.2.1.1/sparseMVN/vignettes/sparseMVN.Rnw |only sparseMVN-0.2.2/sparseMVN/DESCRIPTION | 27 ++-- sparseMVN-0.2.2/sparseMVN/MD5 | 29 ++--- sparseMVN-0.2.2/sparseMVN/NEWS | 19 +-- sparseMVN-0.2.2/sparseMVN/R/dmvn-sparse.R |only sparseMVN-0.2.2/sparseMVN/R/rmvn-sparse.R | 79 +------------- sparseMVN-0.2.2/sparseMVN/R/sparseMVN.R | 3 sparseMVN-0.2.2/sparseMVN/build/vignette.rds |binary sparseMVN-0.2.2/sparseMVN/inst/doc/sparseMVN2.R |only sparseMVN-0.2.2/sparseMVN/inst/doc/sparseMVN2.Rmd |only sparseMVN-0.2.2/sparseMVN/inst/doc/sparseMVN2.html |only sparseMVN-0.2.2/sparseMVN/man/dmvn.sparse.Rd |only sparseMVN-0.2.2/sparseMVN/man/rmvn.sparse.Rd | 16 -- sparseMVN-0.2.2/sparseMVN/man/sparseMVN-package.Rd | 14 ++ sparseMVN-0.2.2/sparseMVN/tests/testthat/test_sparseMVN.R | 36 +++--- sparseMVN-0.2.2/sparseMVN/vignettes/.install_extras | 1 sparseMVN-0.2.2/sparseMVN/vignettes/banded.png |only sparseMVN-0.2.2/sparseMVN/vignettes/block_arrow.png |only sparseMVN-0.2.2/sparseMVN/vignettes/sparseMVN2.Rmd |only 23 files changed, 92 insertions(+), 132 deletions(-)
Title: Multivariate and Propensity Score Matching with Balance
Optimization
Description: Provides functions for multivariate and propensity score matching
and for finding optimal balance based on a genetic search algorithm.
A variety of univariate and multivariate metrics to
determine if balance has been obtained are also provided. For
details, see the paper by Jasjeet Sekhon
(2007, <doi:10.18637/jss.v042.i07>).
Author: Jasjeet Singh Sekhon <jas.sekhon@yale.edu>
Maintainer: Jasjeet Singh Sekhon <jas.sekhon@yale.edu>
Diff between Matching versions 4.9-10 dated 2021-10-09 and 4.9-11 dated 2021-10-25
Matching-4.9-10/Matching/cleanup |only Matching-4.9-10/Matching/configure |only Matching-4.9-10/Matching/configure.ac |only Matching-4.9-10/Matching/src/Makevars.in |only Matching-4.9-11/Matching/DESCRIPTION | 8 ++++---- Matching-4.9-11/Matching/MD5 | 9 +++------ Matching-4.9-11/Matching/build/partial.rdb |binary Matching-4.9-11/Matching/src/Makevars |only 8 files changed, 7 insertions(+), 10 deletions(-)
Title: Dual Empirical Likelihood Inference under Density Ratio Models
in the Presence of Multiple Samples
Description: Dual empirical likelihood (DEL) inference under semiparametric density ratio models (DRM) in the presence of multiple samples, including population cumulative distribution function estimation, quantile estimation and comparison, density estimation, composite hypothesis testing for DRM parameters which encompasses testing for changes in population distribution functions as a special case, etc.
Author: Song Cai
Maintainer: Song Cai <scai@math.carleton.ca>
Diff between drmdel versions 1.3.1 dated 2015-01-21 and 1.3.2 dated 2021-10-25
ChangeLog | 3 +++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 3 +++ src/utilities.c | 3 ++- 5 files changed, 16 insertions(+), 9 deletions(-)
Title: Differential Analysis with Random Reference Genes
Description: Differential Analysis of short RNA transcripts that can be modeled by either Poisson or Negative binomial distribution. The statistical methodology implemented in this package is based on the random selection of references genes (Desaulle et al. (2021) <arXiv:2103.09872>).
Author: Dorota Desaulle [aut, cre] (<https://orcid.org/0000-0002-3419-9447>),
Yves Rozenholc [aut] (<https://orcid.org/0000-0002-3907-5101>)
Maintainer: Dorota Desaulle <dorota.desaulle@u-paris.fr>
Diff between DArand versions 0.0.1.0 dated 2021-09-27 and 0.0.1.1 dated 2021-10-25
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/DArand.R | 4 +++- man/DArand.Rd | 5 ++++- tests/testthat/test-DArand.R | 8 ++++---- 5 files changed, 19 insertions(+), 14 deletions(-)
Title: Multi-Format Archive and Compression Support
Description: Bindings to 'libarchive' <http://www.libarchive.org> the
Multi-format archive and compression library. Offers R connections and direct
extraction for many archive formats including 'tar', 'ZIP', '7-zip', 'RAR',
'CAB' and compression formats including 'gzip', 'bzip2', 'compress', 'lzma'
and 'xz'.
Author: Jim Hester [aut, cre] (<https://orcid.org/0000-0002-2739-7082>),
Ondrej Holy [cph] (archive_write_add_filter implementation),
RStudio [cph, fnd]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between archive versions 1.1.1 dated 2021-10-13 and 1.1.2 dated 2021-10-25
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/zzz.R | 1 + README.md | 6 +++--- build/archive.pdf |binary src/archive_extract.cpp | 2 +- src/archive_write_files.cpp | 3 +-- 8 files changed, 20 insertions(+), 16 deletions(-)
Title: Multi-Level Vector Autoregression
Description: Estimates the multi-level vector autoregression model on time-series data.
Three network structures are obtained: temporal networks, contemporaneous
networks and between-subjects networks.
Author: Sacha Epskamp [aut, cre],
Marie K. Deserno [aut],
Laura F. Bringmann [aut],
Myrthe Veenman [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between mlVAR versions 0.4.4 dated 2019-10-21 and 0.5 dated 2021-10-25
DESCRIPTION | 18 ++- MD5 | 18 +-- NAMESPACE | 6 + NEWS | 11 + R/S3Methods.R | 20 ++- R/lmer_murmur.R | 19 +-- R/mlVAR.R | 52 +++++++- R/mlVARsamplesize.R | 301 +++++++++++++++++++++++++++++++++++++++------------- R/modelMatrix.R | 5 man/mlVARsample.Rd | 57 ++++++++- 10 files changed, 384 insertions(+), 123 deletions(-)
Title: Set Axis Break for 'ggplot2'
Description: An implementation of scale functions for setting axis breaks of a 'gg' plot.
Author: Guangchuang Yu [aut, cre, cph]
(<https://orcid.org/0000-0002-6485-8781>),
Shuangbin Xu [aut] (<https://orcid.org/0000-0003-3513-5362>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggbreak versions 0.0.6 dated 2021-10-09 and 0.0.7 dated 2021-10-25
DESCRIPTION | 13 ++++-- MD5 | 28 ++++++++------ NAMESPACE | 1 NEWS.md | 5 ++ R/grid-draw-utilities.R | 20 ++++++++++ R/method-grid-draw.R | 90 +++++++++++++++++++++++++++++------------------- R/scales.R | 44 ++++++++++++++++------- R/utilities.R | 11 +++++ R/zzz.R |only inst/CITATION |only inst/doc/ggbreak.R | 7 +++ inst/doc/ggbreak.Rmd | 14 +++++++ inst/doc/ggbreak.html | 26 ++++++++----- man/scale_break.Rd | 12 +++++- man/scale_cut.Rd | 12 +++++- vignettes/ggbreak.Rmd | 14 +++++++ 16 files changed, 216 insertions(+), 81 deletions(-)
Title: Interface to 'fastai'
Description: The 'fastai' <https://docs.fast.ai/index.html> library
simplifies training fast and accurate neural networks
using modern best practices. It is based on research
in to deep learning best practices undertaken
at 'fast.ai', including 'out of the box' support
for vision, text, tabular, audio, time series, and
collaborative filtering models.
Author: Turgut Abdullayev [ctb, cre, cph, aut]
Maintainer: Turgut Abdullayev <turqut.a.314@gmail.com>
Diff between fastai versions 2.0.9 dated 2021-07-28 and 2.1.0 dated 2021-10-25
fastai-2.0.9/fastai/tests/testthat/test-GAN.R |only fastai-2.0.9/fastai/tests/testthat/test-experimental.R |only fastai-2.0.9/fastai/tests/testthat/test-generics-tensor.R |only fastai-2.0.9/fastai/tests/testthat/test-image.R |only fastai-2.0.9/fastai/tests/testthat/test-medical.R |only fastai-2.0.9/fastai/tests/testthat/test-medical_image_render.R |only fastai-2.0.9/fastai/tests/testthat/test-model_load.R |only fastai-2.0.9/fastai/tests/testthat/test-modify.R |only fastai-2.0.9/fastai/tests/testthat/test-nn_module.R |only fastai-2.0.9/fastai/tests/testthat/test-predict_medical.R |only fastai-2.0.9/fastai/tests/testthat/test-pretrained_in_cnn_learner.R |only fastai-2.0.9/fastai/tests/testthat/test-regression.R |only fastai-2.0.9/fastai/tests/testthat/test-tabular.R |only fastai-2.0.9/fastai/tests/testthat/test-text-load.R |only fastai-2.0.9/fastai/tests/testthat/test-text.R |only fastai-2.0.9/fastai/tests/testthat/test-time-series.R |only fastai-2.1.0/fastai/DESCRIPTION | 8 +-- fastai-2.1.0/fastai/MD5 | 24 +--------- fastai-2.1.0/fastai/R/install_fastai.R | 12 ++--- fastai-2.1.0/fastai/README.md | 11 ++-- fastai-2.1.0/fastai/build/vignette.rds |binary 21 files changed, 20 insertions(+), 35 deletions(-)
Title: Generative Art with 'ggplot2'
Description: Provides algorithms for creating artworks in the 'ggplot2' language that incorporate some form of randomness.
Author: Koen Derks [aut, cre]
Maintainer: Koen Derks <koen-derks@hotmail.com>
Diff between aRtsy versions 0.1.3 dated 2021-09-26 and 0.1.4 dated 2021-10-25
DESCRIPTION | 15 +-- MD5 | 33 ++++--- NAMESPACE | 1 NEWS.md | 12 ++ R/RcppExports.R | 8 + R/canvas_ant.R | 3 R/canvas_flow.R | 41 +++++---- R/canvas_maze.R |only R/canvas_nebula.R | 4 R/colorPalette.R | 65 +++++++++++++- README.md | 157 ++++++++++++++++++++---------------- inst/CITATION | 4 man/canvas_flow.Rd | 18 ++-- man/canvas_maze.Rd |only man/colorPalette.Rd | 6 - src/RcppExports.cpp | 23 ++++- src/canvas_flow.cpp | 9 -- src/canvas_maze.cpp |only tests/testthat/test-all-paintings.R | 50 ++++++----- 19 files changed, 287 insertions(+), 162 deletions(-)
Title: Port of the S+ "Robust Library"
Description: Methods for robust statistics, a state of the art in the early
2000s, notably for robust regression and robust multivariate analysis.
Author: Jiahui Wang,
Ruben Zamar <ruben@stat.ubc.ca>,
Alfio Marazzi <Alfio.Marazzi@inst.hospvd.ch>,
Victor Yohai <vyohai@dm.uba.ar>,
Matias Salibian-Barrera <matias@stat.ubc.ca>,
Ricardo Maronna <maron@mate.unlp.edu.ar>,
Eric Zivot <ezivot@u.washington.edu>,
David Rocke <dmrocke@ucdavis.edu>,
Doug Martin,
Martin Maechler <maechler@stat.math.ethz.ch>,
Kjell Konis <kjell.konis@me.com>.
Maintainer: Valentin Todorov <valentin.todorov@chello.at>
Diff between robust versions 0.5-0.0 dated 2020-03-07 and 0.6-0 dated 2021-10-25
DESCRIPTION | 9 MD5 | 12 NAMESPACE | 20 R/library.q | 4 man/OverlaidDenPlot.fdfm.Rd | 8 src/compatibility.c | 1 tests/Examples/robust-Ex.Rout.save | 2291 ++++++++++++++++++------------------- 7 files changed, 1182 insertions(+), 1163 deletions(-)
Title: Automate Package and Project Setup
Description: Automate package and project setup tasks that are
otherwise performed manually. This includes setting up unit testing,
test coverage, continuous integration, Git, 'GitHub', licenses,
'Rcpp', 'RStudio' projects, and more.
Author: Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>),
Malcolm Barrett [aut] (<https://orcid.org/0000-0003-0299-5825>),
RStudio [cph, fnd]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between usethis versions 2.1.0 dated 2021-10-16 and 2.1.2 dated 2021-10-25
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- NEWS.md | 10 ++++++++++ R/git-default-branch.R | 25 ++++++++++++++++++++++--- R/release.R | 3 ++- man/git-default-branch.Rd | 2 +- 6 files changed, 48 insertions(+), 18 deletions(-)
Title: Advanced 'tryCatch()' and 'try()' Functions
Description: Advanced tryCatch() and try() functions for better error handling
(logging, stack trace with source code references and support for post-mortem analysis via dump files).
Author: Juergen Altfeld [aut, cre, cph],
Charles Epaillard [ctb],
Brandon Bertelsen [ctb],
Valerian Wrobel [ctb]
Maintainer: Juergen Altfeld <jaltfeld@altfeld-im.de>
Diff between tryCatchLog versions 1.2.4 dated 2021-05-21 and 1.3.1 dated 2021-10-25
tryCatchLog-1.2.4/tryCatchLog/tests/testthat/build_log_output_test_data_2.txt |only tryCatchLog-1.2.4/tryCatchLog/tests/testthat/out2.txt |only tryCatchLog-1.3.1/tryCatchLog/DESCRIPTION | 12 - tryCatchLog-1.3.1/tryCatchLog/MD5 | 34 ++-- tryCatchLog-1.3.1/tryCatchLog/NEWS.md | 27 +++ tryCatchLog-1.3.1/tryCatchLog/R/limited_Labels_Compact.R | 27 ++- tryCatchLog-1.3.1/tryCatchLog/R/tryCatchLog.R | 37 ++++ tryCatchLog-1.3.1/tryCatchLog/R/tryLog.R | 4 tryCatchLog-1.3.1/tryCatchLog/inst/doc/90_appendix.Rmd_child | 2 tryCatchLog-1.3.1/tryCatchLog/inst/doc/tryCatchLog-intro.html | 6 tryCatchLog-1.3.1/tryCatchLog/man/limitedLabelsCompact.Rd | 10 - tryCatchLog-1.3.1/tryCatchLog/man/tryCatchLog.Rd | 12 + tryCatchLog-1.3.1/tryCatchLog/man/tryLog.Rd | 5 tryCatchLog-1.3.1/tryCatchLog/tests/testthat/expected_full_stack_trace.txt | 66 ------- tryCatchLog-1.3.1/tryCatchLog/tests/testthat/expected_log_output.txt |only tryCatchLog-1.3.1/tryCatchLog/tests/testthat/test_build_log_output.R | 4 tryCatchLog-1.3.1/tryCatchLog/tests/testthat/test_logging_of_conditions.R |only tryCatchLog-1.3.1/tryCatchLog/tests/testthat/test_silent_warnings.R | 3 tryCatchLog-1.3.1/tryCatchLog/tests/testthat/test_user_defined_conditions.R | 83 ++++------ tryCatchLog-1.3.1/tryCatchLog/vignettes/90_appendix.Rmd_child | 2 20 files changed, 180 insertions(+), 154 deletions(-)
More information about simplermarkdown at CRAN
Permanent link
Title: R MPFR - Multiple Precision Floating-Point Reliable
Description: Arithmetic (via S4 classes and methods) for
arbitrary precision floating point numbers, including transcendental
("special") functions. To this end, the package interfaces to
the 'LGPL' licensed 'MPFR' (Multiple Precision Floating-Point Reliable) Library
which itself is based on the 'GMP' (GNU Multiple Precision) Library.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Richard M. Heiberger [ctb] (formatHex(), *Bin, *Dec),
John C. Nash [ctb] (hjkMpfr(), origin of unirootR()),
Hans W. Borchers [ctb] (optimizeR(*, "GoldenRatio"); origin of
hjkMpfr())
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between Rmpfr versions 0.8-5 dated 2021-10-06 and 0.8-6 dated 2021-10-25
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 13 +++++++++++++ inst/doc/Maechler_useR_2011-abstr.pdf |binary inst/doc/Rmpfr-pkg.pdf |binary inst/doc/log1mexp-note.pdf |binary man/Bessel_mpfr.Rd | 22 ++++++++++++---------- src/convert.c | 25 +++++++++++++++---------- 10 files changed, 54 insertions(+), 34 deletions(-)
Title: Multimodal and Multilevel Network Analysis
Description: A set of tools that extend common social network analysis packages
for analysing multimodal and multilevel networks.
It includes functions for one- and two-mode (and sometimes three-mode)
centrality, centralization, clustering, and constraint,
as well as for one- and two-mode network regression and block-modelling.
All functions operate with matrices, edge lists,
and 'igraph', 'network'/'sna', and 'tidygraph' objects.
The package is released as a complement to
'Multimodal Political Networks' (2021, ISBN:9781108985000),
and includes various datasets used in the book.
Author: James Hollway [cph, cre, aut, ctb] (IHEID,
<https://orcid.org/0000-0002-8361-9647>)
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between migraph versions 0.8.1 dated 2021-10-22 and 0.8.2 dated 2021-10-25
DESCRIPTION | 16 +- MD5 | 28 +-- NAMESPACE | 4 NEWS.md | 23 +++ R/blockmodel.R | 5 R/blockmodel_visualisation.R | 2 R/coercion.R | 3 R/reexports_ggplot2.R | 4 R/to.R | 27 +++ inst/doc/blockmodel.R | 13 - inst/doc/blockmodel.Rmd | 76 +++++++-- inst/doc/blockmodel.html | 328 ++++++++++++++++++++++--------------------- man/reexports.Rd | 3 man/to.Rd | 4 vignettes/blockmodel.Rmd | 76 +++++++-- 15 files changed, 374 insertions(+), 238 deletions(-)
Title: Kaya Identity Data for Nations and Regions
Description: Provides data for Kaya identity variables (population, gross
domestic product, primary energy consumption, and energy-related
CO2 emissions) for the world and for individual nations, and
utility functions for looking up data, plotting trends of
Kaya variables, and plotting the fuel mix for a given country
or region. The Kaya identity (Yoichi Kaya and Keiichi Yokobori,
"Environment, Energy, and Economy: Strategies for Sustainability"
(United Nations University Press, 1998) and
<https://en.wikipedia.org/wiki/Kaya_identity>) expresses a nation's
or region's greenhouse gas emissions in terms of its population,
per-capita Gross Domestic Product, the energy intensity of its
economy, and the carbon-intensity of its energy supply.
Author: Jonathan Gilligan [cre, aut] (<https://orcid.org/0000-0003-1375-6686>)
Maintainer: Jonathan Gilligan <jonathan.gilligan@vanderbilt.edu>
Diff between kayadata versions 0.5.1 dated 2021-03-27 and 1.0.0 dated 2021-10-25
kayadata-0.5.1/kayadata/tests/figs |only kayadata-1.0.0/kayadata/DESCRIPTION | 10 - kayadata-1.0.0/kayadata/MD5 | 45 ++--- kayadata-1.0.0/kayadata/NAMESPACE | 2 kayadata-1.0.0/kayadata/NEWS.md | 13 + kayadata-1.0.0/kayadata/R/kaya.R | 2 kayadata-1.0.0/kayadata/R/kayadata.R | 5 kayadata-1.0.0/kayadata/R/plot_kaya.R | 4 kayadata-1.0.0/kayadata/build/partial.rdb |binary kayadata-1.0.0/kayadata/build/vignette.rds |binary kayadata-1.0.0/kayadata/data/fuel_mix.rda |binary kayadata-1.0.0/kayadata/data/kaya_data.rda |binary kayadata-1.0.0/kayadata/inst/WORDLIST | 34 ++-- kayadata-1.0.0/kayadata/inst/doc/kayadata.html | 42 ++--- kayadata-1.0.0/kayadata/inst/doc/policy_analysis.html | 78 ++++------ kayadata-1.0.0/kayadata/man/figures/README-plot-fuel-mix-1.png |binary kayadata-1.0.0/kayadata/man/figures/README-plot-kaya-1.png |binary kayadata-1.0.0/kayadata/man/figures/README-plot-kaya-world-1.png |binary kayadata-1.0.0/kayadata/man/kayadata-package.Rd | 2 kayadata-1.0.0/kayadata/tests/testthat/_snaps |only 20 files changed, 120 insertions(+), 117 deletions(-)
Title: Explanatory Item Response Modeling for Dichotomous and
Polytomous Items
Description: Analysis of dichotomous and polytomous response data using the explanatory item response modeling framework, as described in Bulut, Gorgun, & Yildirim-Erbasli (2021) <doi:10.3390/psych3030023>, Stanke & Bulut (2019) <doi:10.21449/ijate.515085>, and De Boeck & Wilson (2004) <doi:10.1007/978-1-4757-3990-9>. Generalized linear mixed modeling is used for estimating the effects of item-related and person-related variables on dichotomous and polytomous item responses.
Author: Okan Bulut [aut, cre] (<https://orcid.org/0000-0001-5853-1267>)
Maintainer: Okan Bulut <bulut@ualberta.ca>
Diff between eirm versions 0.4 dated 2021-07-04 and 0.5 dated 2021-10-25
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS.md | 6 ++++++ R/eirm.R | 51 ++++++++++++++++++++++++++++++++++++++++++--------- R/polyreformat.R | 2 +- inst/CITATION | 38 +++++++++++++++++++++++++------------- man/eirm.Rd | 19 ++++++++++++++++++- 8 files changed, 105 insertions(+), 36 deletions(-)
More information about DominoPredictionLogging at CRAN
Permanent link
Title: Efficient Phylogenetics on Large Trees
Description: Efficient phylogenetic analyses on massive phylogenies comprising up to millions of tips. Functions include pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. Calculation of phylogenetic signal and mean trait depth (trait conservatism), ancestral state reconstruction and hidden character prediction of discrete characters, simulating and fitting models of trait evolution, fitting and simulating diversification models, dating trees, comparing trees, and reading/writing trees in Newick format. Citation: Louca, Stilianos and Doebeli, Michael (2017) <doi:10.1093/bioinformatics/btx701>.
Author: Stilianos Louca
Maintainer: Stilianos Louca <louca@zoology.ubc.ca>
Diff between castor versions 1.6.9 dated 2021-08-16 and 1.7.0 dated 2021-10-25
castor-1.6.9/castor/R/get_trait_depth.R |only castor-1.6.9/castor/man/get_trait_depth.Rd |only castor-1.7.0/castor/DESCRIPTION | 10 castor-1.7.0/castor/MD5 | 96 +- castor-1.7.0/castor/NAMESPACE | 7 castor-1.7.0/castor/R/RcppExports.R | 8 castor-1.7.0/castor/R/asr_max_parsimony.R | 2 castor-1.7.0/castor/R/auxiliary_routines.R | 12 castor-1.7.0/castor/R/collapse_monofurcations.R | 2 castor-1.7.0/castor/R/collapse_tree_at_resolution.R | 2 castor-1.7.0/castor/R/consentrait_depth.R |only castor-1.7.0/castor/R/discrete_trait_depth.R |only castor-1.7.0/castor/R/fit_hbd_pdr_on_grid.R | 6 castor-1.7.0/castor/R/generate_gene_tree_msc.R | 2 castor-1.7.0/castor/R/generate_gene_tree_msc_hgt_dl.R | 4 castor-1.7.0/castor/R/generate_random_tree.R | 2 castor-1.7.0/castor/R/generate_tree_hbd_reverse.R | 2 castor-1.7.0/castor/R/generate_tree_hbds.R | 2 castor-1.7.0/castor/R/generate_tree_with_evolving_rates.R | 2 castor-1.7.0/castor/R/get_subtree_at_node.R | 2 castor-1.7.0/castor/R/get_subtree_with_tips.R | 2 castor-1.7.0/castor/R/get_subtrees_at_nodes.R | 2 castor-1.7.0/castor/R/is_bifurcating.R |only castor-1.7.0/castor/R/join_rooted_trees.R | 2 castor-1.7.0/castor/R/merge_nodes_to_multifurcations.R | 2 castor-1.7.0/castor/R/merge_short_edges.R | 2 castor-1.7.0/castor/R/multifurcations_to_bifurcations.R | 2 castor-1.7.0/castor/R/read_tree.R | 2 castor-1.7.0/castor/R/reorder_tree_edges.R | 5 castor-1.7.0/castor/R/root_at_midpoint.R | 3 castor-1.7.0/castor/R/root_at_node.R | 2 castor-1.7.0/castor/R/root_in_edge.R | 1 castor-1.7.0/castor/R/root_via_outgroup.R | 1 castor-1.7.0/castor/R/simulate_dsse.R | 2 castor-1.7.0/castor/R/simulate_tdsse.R | 2 castor-1.7.0/castor/R/spline_coefficients.R |only castor-1.7.0/castor/R/split_tree_at_height.R | 2 castor-1.7.0/castor/R/tree_from_branching_ages.R | 2 castor-1.7.0/castor/R/tree_from_sampling_branching_ages.R | 2 castor-1.7.0/castor/R/trim_tree_at_height.R | 2 castor-1.7.0/castor/man/asr_max_parsimony.Rd | 6 castor-1.7.0/castor/man/asr_mk_model.Rd | 2 castor-1.7.0/castor/man/consentrait_depth.Rd |only castor-1.7.0/castor/man/discrete_trait_depth.Rd |only castor-1.7.0/castor/man/evaluate_spline.Rd | 7 castor-1.7.0/castor/man/fit_hbd_pdr_on_best_grid_size.Rd | 2 castor-1.7.0/castor/man/fit_hbd_pdr_on_grid.Rd | 2 castor-1.7.0/castor/man/geographic_acf.Rd | 2 castor-1.7.0/castor/man/get_trait_acf.Rd | 2 castor-1.7.0/castor/man/is_bifurcating.Rd |only castor-1.7.0/castor/man/root_at_midpoint.Rd | 2 castor-1.7.0/castor/man/spline_coefficients.Rd |only castor-1.7.0/castor/src/RcppExports.cpp | 44 + castor-1.7.0/castor/src/phylogenetics_cpp_routines.cpp | 580 ++++++++++++-- 54 files changed, 674 insertions(+), 174 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-11 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-21 0.2.5
2017-07-13 0.2.0
2017-04-07 0.1.1
2017-04-06 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-09 3.3.0
2021-04-13 3.2.1
2021-03-22 3.2.0
2020-12-08 3.1.1
2020-11-18 3.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-09 0.2.0
2021-01-21 0.1.1
2021-01-18 0.1.0
Title: Framework for Specifying and Simulating Individual Based Models
Description: A framework which provides users a set of useful primitive elements for
specifying individual based simulation models, with special attention models for
infectious disease epidemiology. Users build models by specifying variables for
each characteristic of individuals in the simulated population by using data
structures exposed by the package. The package provides efficient methods for
finding subsets of individuals based on these variables, or cohorts. Cohorts can
then be targeted for variable updates or scheduled for events. Variable updates
queued during a time step are executed at the end of a discrete time step, and
the code places no restrictions on how individuals are allowed to interact.
These data structures are designed to provide an intuitive way for users to turn
their conceptual model of a system into executable code, which is fast and
memory efficient.
Author: Giovanni Charles [aut, cre] (<https://orcid.org/0000-0002-7024-1200>),
Sean L. Wu [aut] (<https://orcid.org/0000-0002-5781-9493>),
Peter Winskill [aut] (<https://orcid.org/0000-0003-3001-4959>),
Imperial College of Science, Technology and Medicine [cph]
Maintainer: Giovanni Charles <giovanni.charles@gmail.com>
Diff between individual versions 0.1.6 dated 2021-10-14 and 0.1.7 dated 2021-10-25
DESCRIPTION | 8 MD5 | 72 +- NEWS.md | 4 R/bitset.R | 48 - R/catch-routine-registration.R | 2 R/categorical_variable.R | 14 R/double_variable.R | 8 R/event.R | 12 R/integer_variable.R | 10 R/prefab.R | 88 +-- R/render.R | 22 R/targeted_event.R | 12 README.md | 61 +- inst/doc/API.html | 728 +++++++++++++++------------ inst/doc/Contributing.html | 402 ++++++++------ inst/doc/Performance.html | 676 ++++++++++++++----------- inst/doc/Tutorial.html | 646 +++++++++++++---------- inst/include/Event.h | 3 man/Bitset.Rd | 48 - man/CategoricalVariable.Rd | 10 man/DoubleVariable.Rd | 8 man/Event.Rd | 12 man/IntegerVariable.Rd | 10 man/Render.Rd | 22 man/TargetedEvent.Rd | 12 man/bernoulli_process.Rd | 10 man/categorical_count_renderer_process.Rd | 10 man/fixed_probability_multinomial_process.Rd | 12 man/infection_age_process.Rd | 22 man/multi_probability_bernoulli_process.Rd | 10 man/multi_probability_multinomial_process.Rd | 10 man/reschedule_listener.Rd | 8 man/update_category_listener.Rd | 6 src/RcppExports.cpp | 9 src/categorical_variable.cpp | 3 tests/testthat/test-categoricalvariable.R | 21 tests/testthat/test-cpp.R | 5 37 files changed, 1732 insertions(+), 1332 deletions(-)
Title: 'DataSHIELD' Client for 'MOLGENIS Armadillo'
Description: 'DataSHIELD' is an infrastructure and series of R packages that
enables the remote and 'non-disclosive' analysis of sensitive research data.
This package is the 'DataSHIELD' interface implementation to analyze data
shared on a 'MOLGENIS Armadillo' server. 'MOLGENIS Armadillo' is a
light-weight 'DataSHIELD' server using a file store and an 'RServe' server.
Author: Sido Haakma [aut, cre] (<https://orcid.org/0000-0003-1278-9144>),
Tommy de Boer [aut] (<https://orcid.org/0000-0002-4492-7225>),
Fleur Kelpin [aut] (<https://orcid.org/0000-0003-1527-5130>),
MOLGENIS org [cph, fnd]
Maintainer: Sido Haakma <s.haakma@rug.nl>
Diff between DSMolgenisArmadillo versions 1.3.7 dated 2021-10-14 and 1.4.0 dated 2021-10-25
DESCRIPTION | 10 +-- MD5 | 18 +++--- NEWS.md | 6 +- R/ArmadilloConnection.R | 13 ++++ R/ArmadilloDriver.R | 13 +++- man/DSMolgenisArmadillo-package.Rd | 6 -- man/dsConnect-ArmadilloDriver-method.Rd | 3 + tests/testthat/helper.R | 2 tests/testthat/test-ArmadilloConnection.R | 31 ++++++++++ tests/testthat/test-ArmadilloDriver.R | 88 +++++++++++++++++++++++++----- 10 files changed, 154 insertions(+), 36 deletions(-)
More information about DSMolgenisArmadillo at CRAN
Permanent link
Title: Simulated Goodness-of-Fit Tests for Discrete Distributions
Description: Implements Monte Carlo simulations for
goodness-of-fit (GOF) tests for discrete distributions. This
includes tests based on the Chi-squared statistic, the
log-likelihood-ratio (G^2) statistic, the Freeman-Tukey
(Hellinger-distance) statistic, the Kolmogorov-Smirnov
statistic, the Cramer-von Mises statistic as described in
Choulakian, Lockhart and Stephens (1994) <doi:10.2307/3315828>,
and the root-mean-square statistic, see Perkins,
Tygert, and Ward (2011) <doi:10.1016/j.amc.2011.03.124>.
Author: Josh McCormick [aut, cre]
Maintainer: Josh McCormick <josh.mccormick@aya.yale.edu>
Diff between discretefit versions 0.0.0 dated 2021-10-08 and 0.1.0 dated 2021-10-25
discretefit-0.0.0/discretefit/src/chisq_gof.cpp |only discretefit-0.0.0/discretefit/src/ks_gof.cpp |only discretefit-0.0.0/discretefit/src/rms_gof.cpp |only discretefit-0.0.0/discretefit/src/utils.h |only discretefit-0.1.0/discretefit/DESCRIPTION | 22 discretefit-0.1.0/discretefit/MD5 | 54 +- discretefit-0.1.0/discretefit/NAMESPACE | 2 discretefit-0.1.0/discretefit/NEWS.md |only discretefit-0.1.0/discretefit/R/RcppExports.R | 16 discretefit-0.1.0/discretefit/R/chisq_gof.R | 94 ++- discretefit-0.1.0/discretefit/R/cvm_gof.R |only discretefit-0.1.0/discretefit/R/ft_gof.R |only discretefit-0.1.0/discretefit/R/g_gof.R | 30 + discretefit-0.1.0/discretefit/R/ks_gof.R | 29 + discretefit-0.1.0/discretefit/R/rms_gof.R | 30 + discretefit-0.1.0/discretefit/R/utils.R | 4 discretefit-0.1.0/discretefit/README.md | 246 +++++----- discretefit-0.1.0/discretefit/inst/doc/package_introduction.R | 44 - discretefit-0.1.0/discretefit/inst/doc/package_introduction.Rmd | 113 ++-- discretefit-0.1.0/discretefit/inst/doc/package_introduction.html | 177 ++++--- discretefit-0.1.0/discretefit/man/chisq_gof.Rd | 15 discretefit-0.1.0/discretefit/man/cvm_gof.Rd |only discretefit-0.1.0/discretefit/man/ft_gof.Rd |only discretefit-0.1.0/discretefit/man/g_gof.Rd | 21 discretefit-0.1.0/discretefit/man/ks_gof.Rd | 15 discretefit-0.1.0/discretefit/man/rms_gof.Rd | 15 discretefit-0.1.0/discretefit/src/RcppExports.cpp | 51 -- discretefit-0.1.0/discretefit/src/discretefit.h | 30 + discretefit-0.1.0/discretefit/src/simulate_p.cpp | 115 ++-- discretefit-0.1.0/discretefit/src/statistics.cpp | 42 + discretefit-0.1.0/discretefit/tests/testthat/test-results.R | 99 +++- discretefit-0.1.0/discretefit/tests/testthat/test-stats.R |only discretefit-0.1.0/discretefit/vignettes/package_introduction.Rmd | 113 ++-- 33 files changed, 830 insertions(+), 547 deletions(-)
Title: Generalized Pairwise Comparisons
Description: Implementation of the Generalized Pairwise Comparisons (GPC)
as defined in Buyse (2010) <doi:10.1002/sim.3923> for complete observations,
and extended in Peron (2018) <doi:10.1177/0962280216658320> to deal with right-censoring.
GPC compare two groups of observations (intervention vs. control group)
regarding several prioritized endpoints to estimate the probability that a random observation drawn from
one group performs better than a random observation drawn from the other group (Mann-Whitney parameter).
The net benefit and win ratio statistics,
i.e. the difference and ratio between the probabilities relative to the intervention and control groups,
can then also be estimated. Confidence intervals and p-values are obtained based on asymptotic results (Ozenne 2021 <doi:10.1177/09622802211037067>),
non-parametric bootstrap, or permutations.
The software enables the use of thresholds of minimal importance difference,
stratification, non-prioritized endpoints (O Brien test), and can handle right-censoring and competing-risks.
Author: Brice Ozenne [aut, cre] (<https://orcid.org/0000-0001-9694-2956>),
Julien Peron [ctb],
Eva Cantagallo [aut]
Maintainer: Brice Ozenne <brice.mh.ozenne@gmail.com>
Diff between BuyseTest versions 2.3.0 dated 2021-04-23 and 2.3.5 dated 2021-10-25
DESCRIPTION | 26 MD5 | 259 ++- NAMESPACE | 143 +- NEWS | 388 +++-- R/0-onLoad.R | 16 R/1-setGeneric.R | 124 - R/BuyseMultComp.R |only R/BuyseTTEM.R | 1290 +++++++++---------- R/BuyseTest-Peron.R | 628 ++++----- R/BuyseTest-check.R | 968 +++++++------- R/BuyseTest-inference.R | 772 ++++------- R/BuyseTest-initialization.R | 1419 ++++++++++----------- R/BuyseTest-package.R | 101 - R/BuyseTest-print.R | 324 ++-- R/BuyseTest.R | 1355 ++++++++++---------- R/BuyseTest.options.R | 208 +-- R/PairScore.R | 106 - R/RcppExports.R | 415 +++--- R/S4-BuysePower-show.R | 88 - R/S4-BuysePower-summary.R | 402 +++--- R/S4-BuysePower.R | 134 +- R/S4-BuyseTest-coef.R | 357 +++-- R/S4-BuyseTest-confint.R | 1604 ++++++++++++------------ R/S4-BuyseTest-get.R | 1387 ++++++++++---------- R/S4-BuyseTest-sensitivity.R | 951 +++++++------- R/S4-BuyseTest-show.R | 98 - R/S4-BuyseTest-summary.R | 1064 ++++++++-------- R/S4-BuyseTest.R | 564 ++++---- R/S4-BuyseTest.options.R | 436 +++--- R/auc.R | 644 +++++---- R/brier.R |only R/constStrata.R | 176 +- R/discreteRoot.R | 532 ++++---- R/iid.prodlim.R | 372 ++--- R/normexp.R | 416 +++--- R/performance.R |only R/powerBuyseTest.R | 1049 ++++++++------- R/predict.logit.R |only R/simBuyseTest.R | 1076 ++++++++-------- R/simCompetingRisks.R | 282 ++-- R/valid.R | 950 +++++++------- build/vignette.rds |binary inst/CITATION | 96 - inst/doc-Wilcoxon |only inst/doc/overview.pdf |binary inst/doc/overview.pdf.asis | 10 inst/doc/wilcoxonTest.pdf |only inst/doc/wilcoxonTest.pdf.asis |only inst/optim-iid/FCT_calcOnePair.h | 1724 +++++++++++++------------- man/BuyseMultComp.Rd |only man/BuyseTTEM.Rd | 148 +- man/BuyseTest-package.Rd | 82 - man/BuyseTest.Rd | 581 ++++---- man/BuyseTest.options-class.Rd | 36 man/BuyseTest.options-methods.Rd | 44 man/BuyseTest.options.Rd | 67 - man/GPC_cpp.Rd | 340 ++--- man/S4BuysePower-class.Rd | 36 man/S4BuysePower-show.Rd | 50 man/S4BuysePower-summary.Rd | 118 - man/S4BuyseTest-class.Rd | 36 man/S4BuyseTest-coef.Rd | 106 - man/S4BuyseTest-confint.Rd | 228 +-- man/S4BuyseTest-getCount.Rd | 56 man/S4BuyseTest-getIid.Rd | 115 - man/S4BuyseTest-getPairScore.Rd | 286 ++-- man/S4BuyseTest-getPseudovalue.Rd | 138 +- man/S4BuyseTest-getSurvival.Rd | 116 - man/S4BuyseTest-sensitivity.Rd | 176 +- man/S4BuyseTest-show.Rd | 50 man/S4BuyseTest-summary.Rd | 287 ++-- man/auc.Rd | 152 +- man/autoplot.sensitivity.Rd | 100 - man/boot2pvalue.Rd | 170 +- man/calcIntegralSurv2_cpp.Rd | 94 - man/coef.BuyseTestAuc.Rd | 38 man/coef.BuyseTestBrier.Rd |only man/confint.BuyseTestAuc.Rd | 38 man/confint.BuyseTestBrier.Rd |only man/constStrata.Rd | 120 - man/discreteRoot.Rd | 62 man/dot-calcIntegralCif_cpp.Rd | 98 - man/dot-calcIntegralSurv_cpp.Rd | 84 - man/dot-colCenter_cpp.Rd | 38 man/dot-colMultiply_cpp.Rd | 38 man/dot-colScale_cpp.Rd | 38 man/dot-information.logit.Rd |only man/dot-rowCenter_cpp.Rd | 38 man/dot-rowCumProd_cpp.Rd | 34 man/dot-rowCumSum_cpp.Rd | 34 man/dot-rowMultiply_cpp.Rd | 38 man/dot-rowScale_cpp.Rd | 38 man/dot-score.logit.Rd |only man/dot-vcov.logit.Rd |only man/iid.BuyseTestAuc.Rd |only man/iid.BuyseTestBrier.Rd |only man/iid.prodlim.Rd | 82 - man/internal-initialization.Rd | 242 +-- man/internal-print.Rd | 82 - man/performance.Rd |only man/pnormexp.Rd | 58 man/pnormweibull.Rd | 64 man/powerBuyseTest.Rd | 204 +-- man/predict.BuyseTTEM.Rd | 52 man/predict.logit.Rd |only man/qnormexp.Rd | 46 man/qnormweibull.Rd | 76 - man/simCompetingRisks.Rd | 208 +-- man/simulation.Rd | 292 ++-- man/testArgs.Rd | 87 - man/validFCTs.Rd | 310 ++-- src/FCT_buyseTest.cpp | 702 +++++----- src/FCT_calcAllPairs.h | 58 src/FCT_calcOnePair.h | 33 src/FCT_calcStatistic.h | 357 +++-- src/RcppExports.cpp | 18 tests/testthat.R | 83 - tests/testthat/test-BuysePower.R | 396 +++-- tests/testthat/test-BuyseTTEM.R | 504 +++---- tests/testthat/test-BuyseTest-CR.R | 466 +++---- tests/testthat/test-BuyseTest-PairScore.R | 238 +-- tests/testthat/test-BuyseTest-Pairs.R | 1196 +++++++++--------- tests/testthat/test-BuyseTest-checkValues.R | 1085 ++++++++-------- tests/testthat/test-BuyseTest-correctionTTE.R | 446 +++--- tests/testthat/test-BuyseTest-engine.R | 218 +-- tests/testthat/test-BuyseTest-iid.R | 1519 ++++++++++++---------- tests/testthat/test-BuyseTest-neutralAsUnif.R | 204 +-- tests/testthat/test-BuyseTest-operator.R | 198 +- tests/testthat/test-BuyseTest-previousBug.R | 1015 +++++++-------- tests/testthat/test-BuyseTest-resampling.R | 1198 +++++++++--------- tests/testthat/test-auc.R | 218 ++- tests/testthat/test-initSurvival.R | 438 +++--- tests/testthat/test-initThreshold.R | 168 +- tests/testthat/test-otherPackages.R | 296 ++-- vignettes/overview.pdf.asis | 10 vignettes/vignette_CR.Rmd | 146 +- vignettes/wilcoxonTest.pdf.asis |only 137 files changed, 20597 insertions(+), 19718 deletions(-)
Title: Bayesian Time-Stratified Population Analysis
Description: Provides advanced Bayesian methods to estimate
abundance and run-timing from temporally-stratified
Petersen mark-recapture experiments. Methods include
hierarchical modelling of the capture probabilities
and spline smoothing of the daily run size. Theory
described in Bonner and Schwarz (2011)
<doi:10.1111/j.1541-0420.2011.01599.x>.
Author: Carl J Schwarz <cschwarz.stat.sfu.ca@gmail.com> and
Simon J Bonner <sbonner6@uwo.ca>
Maintainer: Carl J Schwarz <cschwarz.stat.sfu.ca@gmail.com>
Diff between BTSPAS versions 2021.11.1 dated 2021-10-11 and 2021.11.2 dated 2021-10-25
DESCRIPTION | 8 MD5 | 50 +-- NEWS.md | 5 R/RunTime.R | 2 R/TimeStratPetersenDiagErrorWHChinook2_fit.R | 17 - R/TimeStratPetersenDiagErrorWHChinook_fit.R | 78 ++--- R/TimeStratPetersenDiagErrorWHSteel_fit.R | 53 +-- R/TimeStratPetersenDiagError_fit.R | 67 +--- R/TimeStratPetersenNonDiagErrorNPMarkAvail_fit.R | 77 ++-- R/TimeStratPetersenNonDiagErrorNP_fit.R | 75 +--- R/TimeStratPetersenNonDiagError_fit.R | 71 +--- R/plot_logit.R | 22 - R/zzz.R | 2 build/partial.rdb |binary inst/doc/a-Diagonal-model.html | 309 +++++++++----------- inst/doc/b-Diagonal-model-with-multiple-ages.html | 38 +- inst/doc/c-Non-diagonal-model.html | 34 +- inst/doc/d-Non-diagonal-with-fall-back-model.html | 24 - inst/doc/e-Bias-from-incomplete-sampling.html | 32 +- inst/doc/f-Interpolating-run-earlier-and-later.html | 12 man/TimeStratPetersenDiagErrorWHChinook_fit.Rd | 9 man/TimeStratPetersenDiagErrorWHSteel_fit.Rd | 6 man/TimeStratPetersenDiagError_fit.Rd | 10 man/TimeStratPetersenNonDiagErrorNPMarkAvail_fit.Rd | 6 man/TimeStratPetersenNonDiagErrorNP_fit.Rd | 6 man/TimeStratPetersenNonDiagError_fit.Rd | 6 26 files changed, 500 insertions(+), 519 deletions(-)
Title: Tools for Matrix Algebra, Optimization and Inference
Description: Matrix is an universal and sometimes primary object/unit in applied mathematics and statistics. We provide a number of algorithms for selected problems in optimization and statistical inference. For general exposition to the topic with focus on statistical context, see the book by Banerjee and Roy (2014, ISBN:9781420095388).
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kisungyou@outlook.com>
Diff between maotai versions 0.2.1 dated 2021-09-21 and 0.2.2 dated 2021-10-25
maotai-0.2.1/maotai/R/aux_hiddenDAS.R |only maotai-0.2.1/maotai/R/aux_hiddenR.R |only maotai-0.2.2/maotai/DESCRIPTION | 6 - maotai-0.2.2/maotai/MD5 | 20 ++--- maotai-0.2.2/maotai/NEWS.md | 6 + maotai-0.2.2/maotai/R/RcppExports.R | 12 +++ maotai-0.2.2/maotai/R/aux_hidden_compute.R |only maotai-0.2.2/maotai/R/aux_hidden_dist.R |only maotai-0.2.2/maotai/R/aux_hidden_operation.R |only maotai-0.2.2/maotai/build/partial.rdb |binary maotai-0.2.2/maotai/src/RcppExports.cpp | 47 +++++++++++ maotai-0.2.2/maotai/src/cpp_casket.cpp | 2 maotai-0.2.2/maotai/src/cpp_smacof.cpp |only maotai-0.2.2/maotai/src/src_computations.cpp | 107 ++++++++++++++++++++++++++- 14 files changed, 184 insertions(+), 16 deletions(-)
Title: Multiple Mediation Analysis
Description: Used for general multiple mediation analysis.
The analysis method is described in Yu et al. (2014) <doi:10.4172/2155-6180.1000189> "General Multiple Mediation Analysis With an Application to Explore Racial Disparity in Breast Cancer Survival", published on Journal of Biometrics & Biostatistics, 5(2):189; and Yu et al.(2017) <DOI:10.1016/j.sste.2017.02.001> "Exploring racial disparity in obesity: a mediation analysis considering geo-coded environmental factors", published on Spatial and Spatio-temporal Epidemiology, 21, 13-23.
Author: Qingzhao Yu and Bin Li
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>
Diff between mma versions 10.5-0 dated 2020-12-11 and 10.5-1 dated 2021-10-25
DESCRIPTION | 12 MD5 | 30 R/mma.r | 17 build/vignette.rds |binary inst/doc/MMAvignette.R | 44 inst/doc/MMAvignette.html | 1026 +++++----- vignettes/MMAvignette_files/figure-html/unnamed-chunk-10-2.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-10-3.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-13-1.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-16-1.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-17-2.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-18-1.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-19-1.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-22-1.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-23-1.png |binary vignettes/MMAvignette_files/figure-html/unnamed-chunk-23-4.png |binary 16 files changed, 582 insertions(+), 547 deletions(-)
Title: Computing Variances and Covariances, Visualization and Missing
Data Solution for Multivariate Meta-Analysis
Description: Collection of functions to compute covariances for different effect sizes, data visualization, and single and multiple imputations for missing data. Effect sizes include correlation (r), mean difference (MD), standardized mean difference (SMD), log odds ratio (logOR), log risk ratio (logRR), and risk difference (RD).
Author: Min Lu <m.lu6@umiami.edu>
Maintainer: Min Lu <m.lu6@umiami.edu>
Diff between metavcov versions 2.1.1 dated 2021-10-07 and 2.1.2 dated 2021-10-25
DESCRIPTION | 12 +- MD5 | 52 +++++----- NAMESPACE | 11 +- R/lgOR.vcov.R | 24 +++- R/lgRR.vcov.R | 22 +++- R/md.vcov.R | 18 ++- R/metafixed.R | 3 R/metami.R | 47 ++++++--- R/mix.vcov.R | 238 ++++++++++++++++++++++++++++++++++++------------ R/plotCI.R | 25 +++-- R/r.vcov.R | 33 ++++-- R/rd.vcov.R | 22 +++- R/smd.vcov.R | 31 ++++-- inst/NEWS | 57 +++++++---- man/lgor_lgrr.Rd | 7 - man/lgor_rd.Rd | 7 - man/lgrr_rd.Rd | 7 - man/md_lgor.Rd | 5 - man/md_lgrr.Rd | 5 - man/md_rd.Rd | 5 - man/md_smd.Rd | 5 - man/metavcov-package.Rd | 2 man/r.vcov.Rd | 2 man/smd.vcov.Rd | 13 +- man/smd_lgor.Rd | 7 - man/smd_lgrr.Rd | 7 - man/smd_rd.Rd | 7 - 27 files changed, 436 insertions(+), 238 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting including the introduced here Violin/Box/Scatter plot for a numerical variable, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics and a built-in help system. Also includes a confirmatory factor analysis of multiple indicator measurement models, pedagogical routines for data simulation such as for the Central Limit Theorem, and generation and rendering of R markdown instructions for interpretative output.
Author: David Gerbing, The School of Business, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 4.0.5 dated 2021-10-05 and 4.0.6 dated 2021-10-25
DESCRIPTION | 10 - MD5 | 82 +++++---- NAMESPACE | 3 NEWS | 38 ++++ R/BarChart.R | 38 ++-- R/Plot.R | 43 ++++- R/Regression.R | 10 - R/SummaryStats.R | 14 - R/interact.R |only R/pivot.R | 75 ++++---- R/reg.zKfold.R | 4 R/zzz.R | 11 + inst/doc/BarChart.R | 2 inst/doc/BarChart.Rmd | 11 + inst/doc/BarChart.html | 23 +- inst/doc/Customize.html | 4 inst/doc/Extract.html | 22 +- inst/doc/Histogram.Rmd | 10 + inst/doc/Histogram.html | 9 - inst/doc/Means.R | 2 inst/doc/Means.Rmd | 4 inst/doc/Means.html | 34 ++-- inst/doc/Plot.Rmd | 19 ++ inst/doc/Plot.html | 69 ++++---- inst/doc/Regression.html | 50 ++--- inst/doc/pivot.R | 7 inst/doc/pivot.Rmd | 23 +- inst/doc/pivot.html | 397 +++++++++++++++++++++++------------------------ inst/doc/utilities.html | 18 +- inst/shiny_examples |only man/BarChart.Rd | 2 man/Plot.Rd | 2 man/interact.Rd |only man/pivot.Rd | 2 vignettes/BarChart.Rmd | 11 + vignettes/Histogram.Rmd | 10 + vignettes/Means.Rmd | 4 vignettes/Plot.Rmd | 19 ++ vignettes/pivot.Rmd | 23 +- 39 files changed, 633 insertions(+), 472 deletions(-)
Title: The Hyperdirichlet Distribution, Mark 2
Description: A suite of routines for the hyperdirichlet distribution; supersedes the 'hyperdirichlet' package.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between hyper2 versions 2.0-0 dated 2021-03-04 and 2.0-1 dated 2021-10-25
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Title: Convert Decimals to Fractions
Description: Provides functions for converting decimals to a
matrix of numerators and denominators or a character vector of
fractions. Supports mixed or improper fractions, finding common
denominators for vectors of fractions, limiting denominators to powers
of ten, and limiting denominators to a maximum value. Also includes
helper functions for finding the least common multiple and greatest
common divisor for a vector of integers. Implemented using C++ for
maximum speed.
Author: Alexander Rossell Hayes [aut, cre, cph]
(<https://orcid.org/0000-0001-9412-0457>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>
Diff between fracture versions 0.1.3 dated 2021-05-25 and 0.2.0 dated 2021-10-25
DESCRIPTION | 11 MD5 | 31 +- NAMESPACE | 38 +-- NEWS.md | 13 + R/RcppExports.R | 30 +- R/check_dots_empty0.R |only R/frac_mat.R | 56 +++- R/fracture.R | 13 - README.md | 378 ++++++++++++++++---------------- man/frac_mat.Rd | 8 man/fracture-package.Rd | 9 man/fracture.Rd | 8 src/RcppExports.cpp | 5 tests/testthat/_snaps |only tests/testthat/test-check_dots_empty0.R |only tests/testthat/test-frac_mat.R | 4 tests/testthat/test-frac_style.R | 35 -- tests/testthat/test-fracture.R | 36 ++- 18 files changed, 375 insertions(+), 300 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut, cre],
Adam Banker [aut],
Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Diff between paws.common versions 0.3.13 dated 2021-10-12 and 0.3.14 dated 2021-10-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ tests/testthat/test_net.R | 9 +++++++++ 4 files changed, 19 insertions(+), 6 deletions(-)
Title: Integrates 'Google Firebase' Authentication Method with 'Shiny'
Description: Authenticate users in 'Shiny' applications using 'Google Firebase'
with any of the many methods provided; email and password, email link, or
using a third-party provider such as 'Github', 'Twitter', or 'Google'.
Author: John Coene [aut, cre]
Maintainer: John Coene <jcoenep@gmail.com>
Diff between firebase versions 0.2.0 dated 2021-09-15 and 0.2.1 dated 2021-10-24
DESCRIPTION | 8 ++-- MD5 | 55 ++++++++++++++++--------------- NAMESPACE | 2 + NEWS.md | 8 ++++ R/class-core.R | 31 +++++++++++++++++ R/class-phone.R |only R/class-ui.R | 21 ++++++++++- R/config.R | 2 + R/dependencies.R | 58 +++++++++++++++++++++++++-------- README.md | 3 + inst/firebase/js/firebase-analytics.js | 2 - inst/firebase/js/firebase-app.js | 2 - inst/firebase/js/firebase-auth.js | 2 - inst/firebase/js/firebase-firestore.js | 2 - inst/fireblaze/core.js | 43 +++++++++++++----------- inst/fireblaze/email-link.js | 4 +- inst/fireblaze/email-password.js | 24 ++++++------- inst/fireblaze/oauth.js | 8 ++-- inst/fireblaze/phone.js |only inst/fireblaze/social.js | 32 +++++++++--------- inst/fireblaze/ui-utils.js | 6 +++ man/Firebase.Rd | 38 +++++++++++++++++++++ man/FirebaseEmailLink.Rd | 2 + man/FirebaseEmailPassword.Rd | 2 + man/FirebaseOauthProviders.Rd | 2 + man/FirebaseSocial.Rd | 2 + man/FirebaseUI.Rd | 5 ++ man/config.Rd | 2 + man/dependencies.Rd | 15 +++++++- man/recaptcha.Rd |only 30 files changed, 273 insertions(+), 108 deletions(-)
Title: Perform and Display Google Trends Queries
Description: An interface for retrieving and displaying the information
returned online by Google Trends is provided. Trends (number of
hits) over the time as well as geographic representation of the
results can be displayed.
Author: Philippe Massicotte [aut, cre],
Dirk Eddelbuettel [aut]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>
Diff between gtrendsR versions 1.4.8 dated 2021-02-23 and 1.5.0 dated 2021-10-24
DESCRIPTION | 8 MD5 | 20 +- NEWS.md | 14 + R/gtrends.R | 121 ++++++------ R/related_queries.R | 45 ++-- R/related_topics.R | 40 ++-- R/setHandleParameters.R | 44 ++-- R/zzz.R | 439 ++++++++++++++++++++++++--------------------- README.md | 2 man/gtrends.Rd | 22 +- man/setHandleParameters.Rd | 46 ++-- 11 files changed, 439 insertions(+), 362 deletions(-)
Title: Linear Model Evaluation with Randomized Residuals in a
Permutation Procedure
Description: Linear model calculations are made for many random versions of data.
Using residual randomization in a permutation procedure, sums of squares are
calculated over many permutations to generate empirical probability distributions
for evaluating model effects. This packaged is described by
Collyer & Adams (2018) <doi:10.1111/2041-210X.13029>. Additionally, coefficients, statistics, fitted values, and residuals generated over many
permutations can be used for various procedures including pairwise tests, prediction, classification, and
model comparison. This package should provide most tools one could need for the analysis of
high-dimensional data, especially in ecology and evolutionary biology, but certainly other fields, as well.
Author: Michael Collyer [aut, cre] (<https://orcid.org/0000-0003-0238-2201>),
Dean Adams [aut] (<https://orcid.org/0000-0001-9172-7894>)
Maintainer: Michael Collyer <mlcollyer@gmail.com>
Diff between RRPP versions 1.1.0 dated 2021-10-09 and 1.1.1 dated 2021-10-24
DESCRIPTION | 6 +- MD5 | 14 +++--- NEWS.md | 8 +++ R/RRPP.support.code.r | 65 ++++++++++++------------------- R/lm.rrpp.r | 2 inst/doc/ANOVA.vs.MANOVA.html | 4 - inst/doc/Using.RRPP.html | 4 - tests/testthat/test-RRPP.R | 86 +++++++++++++++++++++++++++++++++++++++++- 8 files changed, 131 insertions(+), 58 deletions(-)
Title: Creating Groups from Data
Description: Methods for dividing data into groups.
Create balanced partitions and cross-validation folds.
Perform time series windowing and general grouping and splitting of data.
Balance existing groups with up- and downsampling or collapse them to fewer groups.
Author: Ludvig Renbo Olsen [aut, cre]
Maintainer: Ludvig Renbo Olsen <r-pkgs@ludvigolsen.dk>
Diff between groupdata2 versions 1.5.0 dated 2021-07-03 and 2.0.0 dated 2021-10-24
DESCRIPTION | 12 MD5 | 87 - NAMESPACE | 9 NEWS.md | 31 R/collapse_groups.R |only R/collapse_groups_auto_tuning.R |only R/collapse_groups_by.R |only R/create_num_col_groups.R | 112 + R/every_n_method.R |only R/find_missing_starts.R | 15 R/fold.R | 139 +- R/group.R | 9 R/group_factor.R | 44 R/group_size_methods.R | 2 R/helpers.R | 58 R/numerical_balancing.R | 597 ++++++++- R/ranked_balances.R |only R/scale_and_combine.R |only R/summarize_balances.R |only R/summarize_group_cols.R | 2 R/summarizers.R |only README.md | 553 ++++---- build/groupdata2.pdf |binary inst/doc/automatic_groups_with_groupdata2.html | 373 +---- inst/doc/cross-validation_with_groupdata2.html | 687 +++-------- inst/doc/description_of_groupdata2.Rmd | 45 inst/doc/description_of_groupdata2.html | 1013 ++++++---------- inst/doc/introduction_to_groupdata2.html | 211 --- inst/doc/time_series_with_groupdata2.html | 385 +----- man/all_groups_identical.Rd | 2 man/collapse_groups.Rd |only man/collapse_groups_by.Rd |only man/fold.Rd | 85 + man/group.Rd | 37 man/group_factor.Rd | 37 man/partition.Rd | 2 man/ranked_balances.Rd |only man/splt.Rd | 28 man/summarize_balances.Rd |only man/summarize_group_cols.Rd | 5 tests/testthat/test_balance.R | 9 tests/testthat/test_collapse_groups.R |only tests/testthat/test_collapse_groups_auto_tuning.R |only tests/testthat/test_collapse_groups_by.R |only tests/testthat/test_differs_from_previous.R | 22 tests/testthat/test_find_missing_starts.R | 3 tests/testthat/test_fold.R | 331 ++++- tests/testthat/test_group_factor.R | 97 + tests/testthat/test_numerically_balanced_grouping.R | 1244 +++++++++++++++++++- tests/testthat/test_summarize_balances.R |only tests/testthat/test_summarize_group_cols.R | 6 tests/testthat/test_summarizers.R |only vignettes/description_of_groupdata2.Rmd | 45 53 files changed, 3993 insertions(+), 2344 deletions(-)
Title: Linguistic Typology and Mapping
Description: Provides R with the Glottolog database <https://glottolog.org/> and some more abilities for purposes of linguistic mapping. The Glottolog database contains the catalogue of languages of the world. This package helps researchers to make a linguistic maps, using philosophy of the Cross-Linguistic Linked Data project <https://clld.org/>, which allows for while at the same time facilitating uniform access to the data across publications. A tutorial for this package is available on GitHub pages <https://docs.ropensci.org/lingtypology/> and package vignette. Maps created by this package can be used both for the investigation and linguistic teaching. In addition, package provides an ability to download data from typological databases such as WALS, AUTOTYP and some others and to create your own database website.
Author: George Moroz [aut, cre] (<https://orcid.org/0000-0003-1990-6083>),
Kirill Koncha [ctb] (<https://orcid.org/0000-0003-0676-2658>),
Mikhail Leonov [ctb],
Anna Smirnova [ctb]
Maintainer: George Moroz <agricolamz@gmail.com>
Diff between lingtypology versions 1.1.6 dated 2021-10-14 and 1.1.7 dated 2021-10-24
DESCRIPTION | 6 - MD5 | 24 ++++--- NAMESPACE | 1 R/lang.country.R |only R/soundcomparisons.feature.R | 50 +++++++++++++--- R/vanuatu.feature.R | 76 +++++++++++++++++++++---- inst/doc/lingtypology_creating_maps.html | 4 - inst/doc/lingtypology_db_API.html | 4 - inst/doc/lingtypology_dplyr.html | 4 - inst/doc/lingtypology_glottolog_functions.html | 4 - inst/doc/lingtypology_intro.html | 4 - man/lang.country.Rd |only man/soundcomparisons.feature.Rd | 3 tests/testthat/test-soundcomparisons-feature.R | 12 +-- 14 files changed, 141 insertions(+), 51 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-07 0.4.5
2020-06-27 0.4.4
2019-12-01 0.4.2
2019-09-09 0.4.1
2019-07-11 0.4.0
2019-01-16 0.3.6
2018-08-02 0.3.3
2018-06-22 0.3.0
2018-05-30 0.2.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-17 0.1.3
2021-10-08 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-17 0.1.8
2021-10-07 0.1.7
2021-07-28 0.1.6
2021-03-22 0.1.5
2020-11-03 0.1.4
2020-02-09 0.1.3
2019-12-14 0.1.2
2019-05-22 0.1.1
2019-04-25 0.1.0
2019-03-21 0.0.10
2018-12-19 0.0.9
2018-10-22 0.0.8
2018-05-17 0.0.7
2018-02-22 0.0.6
2017-08-13 0.0.5
2017-06-21 0.0.4
2017-06-13 0.0.3
2017-06-12 0.0.2
2017-05-19 0.0.1
2017-05-18 0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-27 0.0.5
Title: Side Grammar Graphics
Description: The grammar of graphics as shown in 'ggplot2' has provided
an expressive API for users to build plots. 'ggside' extends 'ggplot2'
by allowing users to add graphical information about one of the main panel's
axis using a familiar 'ggplot2' style API with tidy data. This package is
particularly useful for visualizing metadata on a discrete axis, or summary
graphics on a continuous axis such as a boxplot or a density distribution.
Author: Justin Landis [aut, cre]
Maintainer: Justin Landis <jtlandis314@gmail.com>
Diff between ggside versions 0.1.2 dated 2021-07-21 and 0.1.3 dated 2021-10-24
ggside-0.1.2/ggside/man/figures/README-unnamed-chunk-2-1.png |only ggside-0.1.3/ggside/DESCRIPTION | 6 ggside-0.1.3/ggside/MD5 | 44 ggside-0.1.3/ggside/NAMESPACE | 4 ggside-0.1.3/ggside/NEWS.md | 5 ggside-0.1.3/ggside/R/Layer.r | 848 +++++----- ggside-0.1.3/ggside/R/plot-construction.R | 5 ggside-0.1.3/ggside/R/sideLayer.R | 114 - ggside-0.1.3/ggside/README.md | 10 ggside-0.1.3/ggside/inst/doc/ggside_aes_mapping.html | 8 ggside-0.1.3/ggside/inst/doc/ggside_basic_usage.html | 28 ggside-0.1.3/ggside/man/figures/README-example-1.png |binary ggside-0.1.3/ggside/man/figures/README-example-mix-scales-1.png |only ggside-0.1.3/ggside/tests/testthat/_snaps/ggside_scales/xsidey-ysidex-facetgrid.svg | 14 ggside-0.1.3/ggside/tests/testthat/_snaps/ggside_scales/xsidey-ysidex-facetnull.svg | 14 ggside-0.1.3/ggside/tests/testthat/_snaps/ggside_scales/xsidey-ysidex-facetwrap.svg | 14 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/basic-side-histo.svg | 6 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/collapsed-histo.svg | 33 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/facetgrid-collapsed-density.svg | 42 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/facetgrid-histo.svg | 33 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/facetgrid-side-density.svg | 42 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/stacked-side-density.svg | 42 ggside-0.1.3/ggside/tests/testthat/_snaps/vdiff_irisScatter/yside-histo.svg | 33 ggside-0.1.3/ggside/tests/testthat/test_vdiff_diamondplots.R | 3 24 files changed, 689 insertions(+), 659 deletions(-)
Title: Portable Native and Joint Stack Traces
Description: Obtain the native stack trace and fuse it with R's
stack trace for easier debugging of R packages with native code.
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
R Consortium [fnd],
Ian Lance Taylor [aut] (Bundled libbacktrace library),
Free Software Foundation [cph] (Bundled libbacktrace library)
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between winch versions 0.0.6 dated 2020-11-16 and 0.0.7 dated 2021-10-24
DESCRIPTION | 9 MD5 | 23 +- NEWS.md | 8 R/add_trace_back.R | 80 +++++++ README.md | 2 build/vignette.rds |binary inst/doc/report.Rmd | 4 inst/doc/report.html | 370 ++++++----------------------------- src/trace_back_backtrace.c | 2 src/trace_back_unwind.c | 2 tests/testthat/_snaps |only tests/testthat/test-add_trace_back.R | 33 +++ vignettes/report.Rmd | 4 13 files changed, 212 insertions(+), 325 deletions(-)
Title: Processing various types of data on GEO and TCGA
Description: Gene Expression Omnibus(GEO) and The Cancer Genome Atlas (TCGA)
provide us with a wealth of data, such as RNA-seq, DNA Methylation, SNP
and Copy number variation data. It's easy to download data from TCGA using the
gdc tool, but processing these data into a format suitable for bioinformatics
analysis requires more work. This R package was developed to handle these data.
Author: Erqiang Hu [aut, cre]
Maintainer: Erqiang Hu <13766876214@163.com>
Diff between GeoTcgaData versions 1.0.1 dated 2021-08-01 and 1.0.2 dated 2021-10-24
DESCRIPTION | 6 +- MD5 | 18 +++--- R/CNV.R | 8 +-- R/SNP.R | 10 ++- R/TCGA_id_conversion.R | 7 +- R/id_conversion_all.r | 24 ++++----- R/sysdata.rda |binary README.md | 2 inst/doc/GeoTcgaData.html | 117 ++++++++++++++++++++------------------------ man/id_conversion_vector.Rd | 3 - 10 files changed, 98 insertions(+), 97 deletions(-)
Title: Minimal R/Shiny Interface to JavaScript Library 'ECharts'
Description: The goal is to deliver the full functionality of 'ECharts' with minimal overhead. 'ECharts' is based on data structures and 'echarty' users build R lists for these same data structures. One to three 'echarty' commands are usually sufficient to produce any chart.
Author: Larry Helgason [aut, cre, cph],
John Coene [aut, cph]
Maintainer: Larry Helgason <larry@helgasoft.com>
Diff between echarty versions 0.3.1 dated 2021-07-30 and 1.4.0 dated 2021-10-24
DESCRIPTION | 12 - MD5 | 43 ++- NAMESPACE | 1 NEWS.md | 25 ++ R/echarty.R | 524 ++++++++++++++++++++++++++------------------ R/examples.R | 92 ++++--- demo/eshiny.R | 151 ++++++------ inst/htmlwidgets/echarty.js | 228 +++++++++---------- inst/js/echarts.min.js | 4 man/ec.clmn.Rd | 19 + man/ec.data.Rd | 3 man/ec.examples.Rd | 96 ++++---- man/ec.fromJson.Rd | 2 man/ec.init.Rd | 31 +- man/ec.inspect.Rd | 2 man/ec.layout.Rd | 13 - man/ec.paxis.Rd |only man/ec.plugjs.Rd | 21 - man/ecr.band.Rd | 2 man/ecr.ebars.Rd | 2 man/ecs.exec.Rd | 2 tests |only 22 files changed, 742 insertions(+), 531 deletions(-)
Title: 'HJ-Biplot' using Different Ways of Penalization Plotting with
'ggplot2'
Description: 'HJ-Biplot' is a multivariate method that allow represent multivariate data on a subspace of low dimension, in such a way that most of the variability of the information is captured in a few dimensions. This package implements three new techniques and constructs in each case the 'HJ-Biplot', adapting restrictions to reduce weights and / or produce zero weights in the dimensions, based on the regularization theories. It implements three methods of regularization: Ridge, LASSO and Elastic Net.
Author: Mitzi Isabel Cubilla-Montilla <mitzi@usal.es>,
Carlos Alfredo Torres-Cubilla <carlos_t22@usal.es>,
Purificacion Galindo Villardon <pgalindo@usal.es> and
Ana Belen Nieto-Librero <ananieto@usal.es>
Maintainer: Mitzi Isabel Cubilla-Montilla <mitzi@usal.es>
Diff between SparseBiplots versions 4.0.0 dated 2020-06-27 and 4.0.1 dated 2021-10-24
DESCRIPTION | 9 ++++----- MD5 | 11 ++++++----- R/ElasticNet_HJBiplot.R | 2 +- R/LASSO_HJBiplot.R | 2 +- R/Plot_Biplot.R | 2 +- R/Ridge_HJBiplot.R | 2 +- inst |only 7 files changed, 14 insertions(+), 14 deletions(-)
Title: Additive Partitions of Integers
Description: Additive partitions of integers. Enumerates the
partitions, unequal partitions, and restricted partitions of an
integer; the three corresponding partition functions are also
given. Set partitions and now compositions are included.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>),
Paul Egeler [ctb] (<https://orcid.org/0000-0001-6948-9498>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between partitions versions 1.10-2 dated 2021-02-23 and 1.10-4 dated 2021-10-23
partitions-1.10-2/partitions/inst/restrictedpartitionsgeneratingfunction.Rmd |only partitions-1.10-4/partitions/DESCRIPTION | 6 - partitions-1.10-4/partitions/MD5 | 31 +++--- partitions-1.10-4/partitions/R/partitions.R | 8 + partitions-1.10-4/partitions/README.md | 45 ++++----- partitions-1.10-4/partitions/build/partial.rdb |only partitions-1.10-4/partitions/build/partitions.pdf |binary partitions-1.10-4/partitions/build/vignette.rds |binary partitions-1.10-4/partitions/inst/doc/partitionspaper.pdf |binary partitions-1.10-4/partitions/inst/doc/scrabble.pdf |binary partitions-1.10-4/partitions/inst/doc/setpartitions.R | 21 ++++ partitions-1.10-4/partitions/inst/doc/setpartitions.Rnw | 47 ++++++++++ partitions-1.10-4/partitions/inst/doc/setpartitions.pdf |binary partitions-1.10-4/partitions/man/conjugate.Rd | 10 +- partitions-1.10-4/partitions/man/figures |only partitions-1.10-4/partitions/man/parts.Rd | 34 ++++++- partitions-1.10-4/partitions/man/setparts.Rd | 12 ++ partitions-1.10-4/partitions/vignettes/setpartitions.Rnw | 47 ++++++++++ 18 files changed, 211 insertions(+), 50 deletions(-)
Title: Isolation-Based Outlier Detection
Description: Fast and multi-threaded implementation of
isolation forest (Liu, Ting, Zhou (2008) <doi:10.1109/ICDM.2008.17>),
extended isolation forest (Hariri, Kind, Brunner (2018) <arXiv:1811.02141>),
SCiForest (Liu, Ting, Zhou (2010) <doi:10.1007/978-3-642-15883-4_18>),
and fair-cut forest (Cortes (2019) <arXiv:1911.06646>),
for isolation-based outlier detection, clustered outlier detection, distance or similarity
approximation (Cortes (2019) <arXiv:1910.12362>),
and imputation of missing values (Cortes (2019) <arXiv:1911.06646>),
based on random or guided decision tree splitting. Provides simple heuristics for fitting the model to
categorical columns and handling missing data, and offers options for varying between random and guided
splits, and for using different splitting criteria.
Author: David Cortes [aut, cre, cph],
Thibaut Goetghebuer-Planchon [cph] (Copyright holder of included
robinmap library),
David Blackman [cph] (Copyright holder of original Xoshiro code),
Sebastiano Vigna [cph] (Copyright holder of original Xoshiro code)
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between isotree versions 0.3.0 dated 2021-08-22 and 0.3.9 dated 2021-10-23
isotree-0.3.0/isotree/inst |only isotree-0.3.0/isotree/src/Makevars |only isotree-0.3.0/isotree/src/robinmap/LICENSE |only isotree-0.3.9/isotree/DESCRIPTION | 8 isotree-0.3.9/isotree/LICENSE | 2 isotree-0.3.9/isotree/MD5 | 64 - isotree-0.3.9/isotree/NAMESPACE | 1 isotree-0.3.9/isotree/R/RcppExports.R | 28 isotree-0.3.9/isotree/R/helpers.R | 625 +++++++++--------- isotree-0.3.9/isotree/R/isoforest.R | 563 +++++++++++----- isotree-0.3.9/isotree/configure |only isotree-0.3.9/isotree/configure.ac |only isotree-0.3.9/isotree/configure.win |only isotree-0.3.9/isotree/man/isolation.forest.Rd | 146 +++- isotree-0.3.9/isotree/man/isotree.add.tree.Rd | 14 isotree-0.3.9/isotree/man/isotree.append.trees.Rd | 9 isotree-0.3.9/isotree/man/isotree.drop.imputer.Rd | 4 isotree-0.3.9/isotree/man/isotree.export.model.Rd | 7 isotree-0.3.9/isotree/man/isotree.import.model.Rd | 2 isotree-0.3.9/isotree/man/predict.isolation_forest.Rd | 20 isotree-0.3.9/isotree/src/Makevars.in |only isotree-0.3.9/isotree/src/RcppExports.cpp | 99 +- isotree-0.3.9/isotree/src/Rwrapper.cpp | 479 ++++++++----- isotree-0.3.9/isotree/src/crit.h | 96 +- isotree-0.3.9/isotree/src/dist.h | 7 isotree-0.3.9/isotree/src/extended.h | 170 ++++ isotree-0.3.9/isotree/src/fit_model.h | 52 + isotree-0.3.9/isotree/src/impute.h | 2 isotree-0.3.9/isotree/src/instantiate_model.h | 14 isotree-0.3.9/isotree/src/isoforest.h | 4 isotree-0.3.9/isotree/src/isotree-win.def |only isotree-0.3.9/isotree/src/isotree.h | 54 + isotree-0.3.9/isotree/src/mult.h | 171 ++++ isotree-0.3.9/isotree/src/predict.h | 245 ++++--- isotree-0.3.9/isotree/src/serialize.cpp | 259 +++++-- isotree-0.3.9/isotree/src/utils.h | 186 ++++- isotree-0.3.9/isotree/src/xoshiro.h | 38 - 37 files changed, 2274 insertions(+), 1095 deletions(-)
Title: Adrian Dusa's Miscellaneous
Description: Contains functions used across packages 'declared', 'DDIwR', 'mixed', 'QCA'
and 'venn'. Interprets and translates, factorizes and negates SOP - Sum of Products
expressions, for both binary and multi-value crisp sets, and extracts information
(set names, set values) from those expressions. Other functions perform various
other checks if possibly numeric (even if all numbers reside in a character vector)
and coerce to numeric, or check if the numbers are whole. It also offers, among
many others, a highly flexible recoding routine.
Author: Adrian Dusa [aut, cre, cph] (<https://orcid.org/0000-0002-3525-9253>)
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between admisc versions 0.18 dated 2021-09-01 and 0.19 dated 2021-10-23
DESCRIPTION | 8 +- MD5 | 41 +++++----- NAMESPACE | 3 R/asSOP.R |only R/checkMV.R | 24 +++--- R/checkValid.R |only R/compute.R | 13 ++- R/getInfo.R | 52 +++++++++++++ R/getLevels.R | 35 +++++++-- R/invert.R | 7 + R/mvSOP.R |only R/recreate.R | 2 R/replaceText.R | 21 +++-- R/simplify.R | 4 - R/translate.R | 185 ++++++++++++++++++++++++++++++++++++------------- R/verify.R | 14 ++- R/writePrimeimp.R | 50 ++++++++++--- build/partial.rdb |binary inst/ChangeLog | 9 +- man/SOPexpression.Rd | 148 +++++++++++++++++++++------------------ man/admisc-internal.Rd | 1 man/admisc.package.Rd | 4 - man/negate.Rd | 35 +++++---- 23 files changed, 451 insertions(+), 205 deletions(-)
Title: Data Sets for Predictive Analytics Exam
Description: Contains all data sets for Exam PA: Predictive Analytics at
<https://exampa.net/>.
Author: Guanglai Li [aut, cre],
Sam Castillo [aut]
Maintainer: Guanglai Li <liguanglai@gmail.com>
Diff between ExamPAData versions 0.4.0 dated 2021-05-26 and 0.5.0 dated 2021-10-23
DESCRIPTION | 8 ++++---- MD5 | 8 +++++++- R/travel_insurance.R |only R/travel_spending.R |only data/travel_insurance.RData |only data/travel_spending.RData |only man/travel_insurance.Rd |only man/travel_spending.Rd |only 8 files changed, 11 insertions(+), 5 deletions(-)
Title: R Bindings to the Calendaring Functionality of 'QuantLib'
Description: 'QuantLib' bindings are provided for R using 'Rcpp' via an updated
variant of the header-only 'Quantuccia' project (put together initially by Peter
Caspers) offering an essential subset of 'QuantLib' (and now maintained separately
for the calendaring subset). See the included file 'AUTHORS' for a full list of
contributors to both 'QuantLib' and 'Quantuccia'.
Author: Dirk Eddelbuettel; the authors and contributors of QuantLib
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppQuantuccia versions 0.0.4 dated 2021-10-12 and 0.0.5 dated 2021-10-23
RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/compounding.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/config.ansi.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/config.mingw.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/config.msvc.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/config.sun.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/currency.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/handle.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/math |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/mathconstants.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/methods |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/patterns/curiouslyrecurring.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/patterns/lazyobject.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/stochasticprocess.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/time/daycounter.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/time/daycounters |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/timegrid.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/userconfig.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/utilities/disposable.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/utilities/steppingiterator.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/utilities/vectors.hpp |only RcppQuantuccia-0.0.4/RcppQuantuccia/inst/include/ql/version.hpp |only RcppQuantuccia-0.0.5/RcppQuantuccia/ChangeLog | 78 ++ RcppQuantuccia-0.0.5/RcppQuantuccia/DESCRIPTION | 20 RcppQuantuccia-0.0.5/RcppQuantuccia/MD5 | 189 +------ RcppQuantuccia-0.0.5/RcppQuantuccia/NAMESPACE | 1 RcppQuantuccia-0.0.5/RcppQuantuccia/R/RcppExports.R | 13 RcppQuantuccia-0.0.5/RcppQuantuccia/README.md | 34 + RcppQuantuccia-0.0.5/RcppQuantuccia/build/partial.rdb |binary RcppQuantuccia-0.0.5/RcppQuantuccia/inst/NEWS.Rd | 10 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/RcppQuantuccia_RcppExports.h | 65 ++ RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/errors.hpp | 99 ++- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/patterns/all.hpp | 3 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/patterns/singleton.hpp | 216 +++----- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/qldefines.hpp | 36 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/quantlib.hpp | 20 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/settings.hpp | 37 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/shared_ptr.hpp |only RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/all.hpp | 6 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/businessdayconvention.hpp | 4 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendar.hpp | 156 ++++- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/all.hpp | 1 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/bespokecalendar.hpp | 37 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/brazil.hpp |only RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/canada.hpp | 22 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/china.hpp | 85 ++- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/germany.hpp | 52 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/japan.hpp | 63 +- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/jointcalendar.hpp | 56 +- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/nullcalendar.hpp | 8 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/target.hpp | 6 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/unitedkingdom.hpp | 96 +-- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/calendars/unitedstates.hpp | 40 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/date.hpp | 80 ++- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/dategenerationrule.hpp | 15 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/ecb.hpp |only RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/frequency.hpp | 2 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/imm.hpp | 10 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/period.hpp | 35 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/schedule.hpp | 265 ++++++---- RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/time/weekday.hpp | 6 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/utilities/all.hpp | 7 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/utilities/dataformatters.hpp | 8 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/utilities/dataparsers.hpp | 40 - RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/utilities/null.hpp | 2 RcppQuantuccia-0.0.5/RcppQuantuccia/inst/include/ql/utilities/observablevalue.hpp | 6 RcppQuantuccia-0.0.5/RcppQuantuccia/man/getHolidays.Rd | 11 RcppQuantuccia-0.0.5/RcppQuantuccia/src/RcppExports.cpp | 87 +++ RcppQuantuccia-0.0.5/RcppQuantuccia/src/dates.cpp | 72 -- 68 files changed, 1260 insertions(+), 839 deletions(-)
More information about RcppQuantuccia at CRAN
Permanent link
Title: Text Mining for Bahasa Malaysia
Description: It is designed to work with text written in Bahasa Malaysia. We provide
functions and data sets that will make working with Bahasa Malaysia text much easier.
For word stemming in particular, we will look up the Malay words in a dictionary and
then proceed to remove "extra suffix" as explained in Khan, Rehman Ullah,
Fitri Suraya Mohamad, Muh Inam UlHaq, Shahren Ahmad Zadi Adruce,
Philip Nuli Anding, Sajjad Nawaz Khan, and Abdulrazak Yahya Saleh Al-Hababi
(2017) <https://ijrest.net/vol-4-issue-12.html> . This package includes
a dictionary of Malay words that may be used to perform word stemming.
Author: Zahier Nasrudin [aut, cre] (<https://orcid.org/0000-0002-7060-776X>)
Maintainer: Zahier Nasrudin <zahiernasrudin@gmail.com>
Diff between malaytextr versions 0.1.1 dated 2021-08-17 and 0.1.2 dated 2021-10-23
DESCRIPTION | 17 ++---- MD5 | 29 +++++----- NEWS.md | 72 ++++++++++++++++++++++++- R/malayrootwords.R | 2 R/malaystopwords.R |only R/stem.R | 116 ++++++++++++++++++++++------------------- README.md | 94 +++++++++++++++++++++++---------- data/malayrootwords.rda |binary data/malaystopwords.rda |only inst/doc/malaytextr.R | 9 ++- inst/doc/malaytextr.Rmd | 15 ++++- inst/doc/malaytextr.html | 37 +++++++++---- man/malayrootwords.Rd | 2 man/malaystopwords.Rd |only man/stem_malay.Rd | 21 ++++--- tests/testthat/test_function.r | 4 - vignettes/malaytextr.Rmd | 15 ++++- 17 files changed, 299 insertions(+), 134 deletions(-)
Title: Interactive Scatter Plot and Volcano Plot Labels
Description: Interactive labelling of scatter plots, volcano plots and
Manhattan plots using a 'shiny' and 'plotly' interface. Users can hover
over points to see where specific points are located and click points
on/off to easily label them. Labels can be dragged around the plot to place
them optimally. Plots can be exported directly to PDF for publication.
Author: Myles Lewis [aut, cre] (<https://orcid.org/0000-0001-9365-5345>),
Katriona Goldmann [aut] (<https://orcid.org/0000-0002-9073-6323>),
Cankut Cubuk [ctb] (<https://orcid.org/0000-0003-4646-0849>)
Maintainer: Myles Lewis <myles.lewis@qmul.ac.uk>
Diff between easylabel versions 0.1.0 dated 2021-10-05 and 0.2.2 dated 2021-10-23
DESCRIPTION | 21 +- MD5 | 33 ++- NAMESPACE | 8 NEWS.md | 11 + R/data.R |only R/easyVolcano.R | 230 ++++++++++++++++++++++++-- R/easylabel.R | 410 ++++++++++++++++++++++++++++++------------------ README.md | 18 +- data |only inst/doc/easylabel.R | 95 +++++++++-- inst/doc/easylabel.Rmd | 262 ++++++++++++++++++++++-------- inst/doc/easylabel.html | 177 ++++++++++++++++---- man/easyMAplot.Rd | 11 - man/easyManhattan.Rd |only man/easyVolcano.Rd | 15 + man/easylabel.Rd | 53 +++++- man/volc1.Rd |only man/volc2.Rd |only vignettes/easylabel.Rmd | 262 ++++++++++++++++++++++-------- vignettes/manhattan.png |only 20 files changed, 1181 insertions(+), 425 deletions(-)
Title: High-Dimensional Shrinkage Optimal Portfolios
Description: Constructs shrinkage estimators of high-dimensional mean-variance portfolios and performs
high-dimensional tests on optimality of a given portfolio. The techniques developed in
Bodnar et al. (2018) <doi:10.1016/j.ejor.2017.09.028>, Bodnar et al. (2019)
<doi:10.1109/TSP.2019.2929964>, Bodnar et al. (2020) <doi:10.1109/TSP.2020.3037369>
are central to the package. They provide simple and feasible estimators and tests for optimal
portfolio weights, which are applicable for 'large p and large n' situations where p is the
portfolio dimension (number of stocks) and n is the sample size. The package also includes tools
for constructing portfolios based on shrinkage estimators of the mean vector and covariance matrix
as well as a new Bayesian estimator for the Markowitz efficient frontier recently developed by
Bauder et al. (2021) <doi:10.1080/14697688.2020.1748214>.
Author: Taras Bodnar [aut] (<https://orcid.org/0000-0001-7855-8221>),
Solomiia Dmytriv [aut] (<https://orcid.org/0000-0003-1855-3044>),
Yarema Okhrin [aut] (<https://orcid.org/0000-0003-4704-5233>),
Dmitry Otryakhin [aut, cre] (<https://orcid.org/0000-0002-4700-7221>),
Nestor Parolya [aut] (<https://orcid.org/0000-0003-2147-2288>)
Maintainer: Dmitry Otryakhin <d.otryakhin.acad@protonmail.ch>
Diff between HDShOP versions 0.1.1 dated 2021-09-02 and 0.1.2 dated 2021-10-23
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/Matrix_shrink.R | 16 +++++++++++++--- R/random_cov_matrix.R | 2 +- build/partial.rdb |binary man/RandCovMtrx.Rd | 2 +- 7 files changed, 29 insertions(+), 15 deletions(-)
Title: Analysis of Parent-Specific DNA Copy Numbers
Description: Segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumor-only analyses are supported.
Author: Henrik Bengtsson [aut, cre, cph],
Pierre Neuvial [aut],
Venkatraman E. Seshan [aut],
Adam B. Olshen [aut],
Paul T. Spellman [aut],
Richard A. Olshen [aut],
Frank E Harrell Jr [ctb] (Weighted quantile estimator adopted from
Hmisc::wtd.quantile())
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between PSCBS versions 0.65.0 dated 2019-05-05 and 0.66.0 dated 2021-10-23
DESCRIPTION | 30 ++-- MD5 | 154 ++++++++++----------- NAMESPACE | 5 NEWS | 44 +++++- R/AbstractCBS.HCLUST.R | 2 R/AbstractCBS.PRUNE.R | 8 - R/AbstractCBS.R | 27 ++- R/AbstractCBS.REPORT.R | 6 R/AbstractCBS.RESTRUCT.R | 11 - R/CBS.CALL.R | 24 +-- R/CBS.EXTS.R | 6 R/CBS.PLOT,many.R | 2 R/CBS.PLOT.R | 4 R/CBS.R | 10 - R/CBS.RESTRUCT.R | 10 - R/CBS.joinSegments.R | 2 R/DNAcopy.EXTS.R | 4 R/NonPairedPSCBS.R | 10 - R/PSCBS.R | 2 R/PSCBS.RESTRUCT.R | 2 R/PairedPSCBS.BOOT.R | 14 - R/PairedPSCBS.BOOT.sets.R | 6 R/PairedPSCBS.CALL.R | 4 R/PairedPSCBS.EXTS.R | 8 - R/PairedPSCBS.PLOT,many.R | 4 R/PairedPSCBS.PLOT.R | 6 R/PairedPSCBS.PLOT2.R | 6 R/PairedPSCBS.R | 4 R/PairedPSCBS.RESTRUCT.R | 14 - R/PairedPSCBS.applyByRegion.R | 2 R/PairedPSCBS.callAB.R | 2 R/PairedPSCBS.callCopyNeutral.R | 12 - R/PairedPSCBS.callGNL.R | 6 R/PairedPSCBS.callLOH.R | 2 R/PairedPSCBS.estimateDeltaAB.R | 24 +-- R/PairedPSCBS.estimateDeltaLOH.R | 12 - R/PairedPSCBS.estimateKappa.R | 6 R/PairedPSCBS.extractSegmentDataByLocus.R | 2 R/PairedPSCBS.updateMeans.R | 6 R/findLargeGaps.R | 2 R/findNeutralCopyNumberState.R | 2 R/gapsToSegments.R | 4 R/installDNAcopy.R | 2 R/segmentByCBS.R | 22 +-- R/segmentByNonPairedPSCBS.R | 8 - R/segmentByPairedPSCBS.R | 44 +++--- R/testROH.R | 2 R/weightedQuantile.R | 85 +++++++++-- R/writeWIG.R | 2 README.md |only build/vignette.rds |binary inst/CITATION | 106 +++++++------- inst/WORDLIST |only inst/doc/CBS.pdf |binary inst/doc/CBS.tex.rsp | 4 inst/doc/PairedPSCBS.pdf |binary inst/doc/PairedPSCBS.tex.rsp | 6 man/AbstractCBS.Rd | 2 man/CBS.Rd | 2 man/NonPairedPSCBS.Rd | 2 man/PSCBS.Rd | 2 man/PairedPSCBS.Rd | 2 man/append.AbstractCBS.Rd | 2 man/bootstrapTCNandDHByRegion.PairedPSCBS.Rd | 2 man/estimateDeltaAB.PairedPSCBS.Rd | 2 man/estimateDeltaLOH.PairedPSCBS.Rd | 2 man/estimateDeltaLOHByMinC1ForNonAB.PairedPSCBS.Rd | 2 man/figures |only man/findNeutralCopyNumberState.Rd | 2 man/load.AbstractCBS.Rd | 2 man/save.AbstractCBS.Rd | 2 man/segmentByNonPairedPSCBS.Rd | 2 man/segmentByPairedPSCBS.Rd | 2 man/weightedQuantile.Rd | 8 - tests/segmentByCBS,futures.R | 8 - tests/segmentByPairedPSCBS,futures.R | 29 ++- tests/weightedQuantile.R |only vignettes/CBS.tex.rsp | 4 vignettes/PSCBS.bib | 6 vignettes/PairedPSCBS.tex.rsp | 6 80 files changed, 507 insertions(+), 376 deletions(-)
Title: Interface to 'Azure Resource Manager'
Description: A lightweight but powerful R interface to the 'Azure Resource Manager' REST API. The package exposes a comprehensive class framework and related tools for creating, updating and deleting 'Azure' resource groups, resources and templates. While 'AzureRMR' can be used to manage any 'Azure' service, it can also be extended by other packages to provide extra functionality for specific services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureRMR versions 2.4.2 dated 2021-06-03 and 2.4.3 dated 2021-10-23
AzureRMR |only 1 file changed
Title: Spatial Absorbing Markov Chains
Description: Implements functions for working with absorbing Markov chains. The
implementation is based on the framework described in "Toward a unified
framework for connectivity that disentangles movement and mortality in space
and time" by Fletcher et al. (2019) <doi:10.1111/ele.13333>, which applies
them to spatial ecology. This framework incorporates both resistance and
absorption with spatial absorbing Markov chains (SAMC) to provide several
short-term and long-term predictions for metrics related to connectivity in
landscapes. Despite the ecological context of the framework, this package
can be used in any application of absorbing Markov chains.
Author: Andrew Marx [aut, cre, cph] (<https://orcid.org/0000-0002-7456-1631>),
Robert Fletcher [ctb] (<https://orcid.org/0000-0003-1717-5707>),
Miguel Acevedo [ctb] (<https://orcid.org/0000-0002-8289-1497>),
Jorge Sefair [ctb] (<https://orcid.org/0000-0002-5887-8938>),
Chao Wang [ctb] (<https://orcid.org/0000-0003-2706-5122>)
Maintainer: Andrew Marx <andrewjmarx@ufl.edu>
Diff between samc versions 1.4.1 dated 2021-09-02 and 2.0.0 dated 2021-10-23
DESCRIPTION | 9 MD5 | 70 ++-- NEWS.md | 9 R/RcppExports.R | 4 R/cond_passage.R | 44 ++ R/dispersal.R | 6 R/generics.R | 11 R/samc-class.R | 8 R/samc.R | 212 ------------ R/zzz.R | 17 - build/vignette.rds |binary inst/doc/code-snippets.html | 225 +------------ inst/doc/data-disconnected.html | 221 +------------ inst/doc/example-maze-part1.R |only inst/doc/example-maze-part1.Rmd |only inst/doc/example-maze-part1.html |only inst/doc/overview.html | 247 ++------------ inst/doc/parallel.R |only inst/doc/parallel.Rmd |only inst/doc/parallel.html |only inst/doc/performance.Rmd | 2 inst/doc/performance.html | 188 ----------- inst/doc/troubleshooting.html | 303 +++-------------- inst/doc/tutorial-animations.html | 365 +++++---------------- inst/doc/tutorial-basic.html | 493 +++++++++-------------------- inst/doc/tutorial-ggplot.html | 429 +++++++------------------ inst/doc/tutorial-locations.html | 419 +++++++----------------- inst/doc/tutorial-multiple-absorption.html | 443 +++++++------------------- inst/doc/tutorial-temporal.html | 353 +++++--------------- man/cond_passage.Rd | 18 + man/samc-class.Rd | 8 man/samc.Rd | 74 ---- src/RcppExports.cpp | 11 src/dispersal.cpp | 114 ++++-- tests/testthat/test-cond_passage.R | 16 tests/testthat/test-dispersal.R | 13 tests/testthat/test-distribution.R | 2 vignettes/example-maze-part1.Rmd |only vignettes/parallel.Rmd |only vignettes/performance.Rmd | 2 40 files changed, 1146 insertions(+), 3190 deletions(-)
Title: Delaunay Triangulation and Dirichlet (Voronoi) Tessellation
Description: Calculates the Delaunay triangulation and the Dirichlet
or Voronoi tessellation (with respect to the entire plane) of
a planar point set. Plots triangulations and tessellations in
various ways. Clips tessellations to sub-windows. Calculates
perimeters of tessellations. Summarises information about
the tiles of the tessellation. Calculates the centroidal
Voronoi (Dirichlet) tessellation using Lloyd's algorithm.
Author: Rolf Turner
Maintainer: Rolf Turner <r.turner@auckland.ac.nz>
Diff between deldir versions 1.0-5 dated 2021-10-09 and 1.0-6 dated 2021-10-23
ChangeLog | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- R/deldir.R | 4 ++-- data/toyPattern.rda |only man/deldir.Rd | 8 +++----- man/toyPattern.Rd |only 7 files changed, 20 insertions(+), 15 deletions(-)
Title: A Bootstrap-Based Heterogeneity Test for Meta-Analysis
Description: Implements a bootstrap-based heterogeneity test for standardized mean differences (d), Fisher-transformed Pearson's correlations (r), and natural-logarithm-transformed odds ratio (or) in meta-analysis studies. Depending on the presence of moderators, this Monte Carlo based test can be implemented in the random- or mixed-effects model. This package uses rma() function from the R package 'metafor' to obtain parameter estimates and likelihoods, so installation of R package 'metafor' is required. This approach refers to the studies of Anscombe (1956) <doi:10.2307/2332926>, Haldane (1940) <doi:10.2307/2332614>, Hedges (1981) <doi:10.3102/10769986006002107>, Hedges & Olkin (1985, ISBN:978-0123363800), Silagy, Lancaster, Stead, Mant, & Fowler (2004) <doi:10.1002/14651858.CD000146.pub2>, Viechtbauer (2010) <doi:10.18637/jss.v036.i03>, and Zuckerman (1994, ISBN:978-0521432009).
Author: Ge Jiang [aut, cre],
Han Du [aut],
Zijun Ke [ctb]
Maintainer: Ge Jiang <gejiang2@illinois.edu>
Diff between boot.heterogeneity versions 1.1.2 dated 2021-01-07 and 1.1.5 dated 2021-10-23
DESCRIPTION | 9 - MD5 | 18 +- R/Internal.R | 46 ++++-- R/boot.d.R | 15 +- R/boot.fcor.R | 15 +- R/boot.lnOR.R | 15 +- build/vignette.rds |binary inst/doc/boot.heterogeneity.Rmd | 1 inst/doc/boot.heterogeneity.html | 277 +++++---------------------------------- vignettes/boot.heterogeneity.Rmd | 1 10 files changed, 118 insertions(+), 279 deletions(-)
More information about boot.heterogeneity at CRAN
Permanent link
Title: Revealed Preference and Attention Analysis in Random Limited
Attention Models
Description: It is widely documented in psychology, economics and other disciplines that socio-economic agent may not pay full attention to all available alternatives, rendering standard revealed preference theory invalid. This package implements the estimation and inference procedures of Cattaneo, Ma, Masatlioglu and Suleymanov (2020) <arXiv:1712.03448> and Cattaneo, Cheung, Ma, and Masatlioglu (2021) <arXiv:2110.10650>, which utilizes standard choice data to partially identify and estimate a decision maker's preference and attention. For inference, several simulation-based critical values are provided.
Author: Matias D. Cattaneo, Paul Cheung, Xinwei Ma, Yusufcan Masatlioglu, Elchin Suleymanov
Maintainer: Xinwei Ma <x1ma@ucsd.edu>
Diff between ramchoice versions 1.1 dated 2019-07-11 and 2.0 dated 2021-10-22
ramchoice-1.1/ramchoice/R/rAtte.R |only ramchoice-1.1/ramchoice/R/rAtte_fun.R |only ramchoice-1.1/ramchoice/man/print.CMMRandomAttention.Rd |only ramchoice-1.1/ramchoice/man/summary.CMMRandomAttention.Rd |only ramchoice-2.0/ramchoice/DESCRIPTION | 15 +- ramchoice-2.0/ramchoice/MD5 | 34 +++-- ramchoice-2.0/ramchoice/NAMESPACE | 12 +- ramchoice-2.0/ramchoice/R/auxiliaryFunctions.R |only ramchoice-2.0/ramchoice/R/ramchoice-package.R | 28 +++- ramchoice-2.0/ramchoice/R/ramdata.R | 8 - ramchoice-2.0/ramchoice/R/revealAtte.R |only ramchoice-2.0/ramchoice/R/revealPref.R |only ramchoice-2.0/ramchoice/build |only ramchoice-2.0/ramchoice/man/genMat.Rd | 39 ++++-- ramchoice-2.0/ramchoice/man/logitAtte.Rd |only ramchoice-2.0/ramchoice/man/logitSimu.Rd |only ramchoice-2.0/ramchoice/man/print.ramchoiceRevealAtte.Rd |only ramchoice-2.0/ramchoice/man/print.ramchoiceRevealPref.Rd |only ramchoice-2.0/ramchoice/man/rAtte.Rd | 76 +++++-------- ramchoice-2.0/ramchoice/man/ramchoice-package.Rd | 26 ++-- ramchoice-2.0/ramchoice/man/ramdata.Rd | 14 +- ramchoice-2.0/ramchoice/man/revealAtte.Rd |only ramchoice-2.0/ramchoice/man/revealPref.Rd |only ramchoice-2.0/ramchoice/man/sumData.Rd | 24 ++-- ramchoice-2.0/ramchoice/man/summary.ramchoiceRevealAtte.Rd |only ramchoice-2.0/ramchoice/man/summary.ramchoiceRevealPref.Rd |only 26 files changed, 159 insertions(+), 117 deletions(-)
Title: Statistical Methods for Sensitivity Analysis in Meta-Analysis
Description: The following methods are implemented to evaluate how sensitive the results of a meta-analysis are to potential bias in meta-analysis and to support Schwarzer et al. (2015) <DOI:10.1007/978-3-319-21416-0>, Chapter 5 'Small-Study Effects in Meta-Analysis':
- Copas selection model described in Copas & Shi (2001) <DOI:10.1177/096228020101000402>;
- limit meta-analysis by Rücker et al. (2011) <DOI:10.1093/biostatistics/kxq046>;
- upper bound for outcome reporting bias by Copas & Jackson (2004) <DOI:10.1111/j.0006-341X.2004.00161.x>;
- imputation methods for missing binary data by Gamble & Hollis (2005) <DOI:10.1016/j.jclinepi.2004.09.013> and Higgins et al. (2008) <DOI:10.1177/1740774508091600>;
- LFK index test and Doi plot by Furuya-Kanamori et al. (2018) <DOI:10.1097/XEB.0000000000000141>.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>),
James R. Carpenter [aut] (<https://orcid.org/0000-0003-3890-6206>),
Gerta Rücker [aut] (<https://orcid.org/0000-0002-2192-2560>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between metasens versions 0.6-0 dated 2021-01-15 and 1.0-0 dated 2021-10-22
metasens-0.6-0/metasens/R/copas.gradient.without.beta.R |only metasens-0.6-0/metasens/R/copas.loglik.with.beta.R |only metasens-0.6-0/metasens/R/copas.loglik.without.beta.R |only metasens-0.6-0/metasens/R/lambda.R |only metasens-1.0-0/metasens/DESCRIPTION | 20 metasens-1.0-0/metasens/MD5 | 90 +-- metasens-1.0-0/metasens/NAMESPACE | 4 metasens-1.0-0/metasens/NEWS.md | 23 metasens-1.0-0/metasens/R/Crowther2003.R | 9 metasens-1.0-0/metasens/R/Moore1998.R | 6 metasens-1.0-0/metasens/R/copas-internal.R |only metasens-1.0-0/metasens/R/copas.R | 52 - metasens-1.0-0/metasens/R/doiplot.R | 8 metasens-1.0-0/metasens/R/forest.orbbound.R | 44 - metasens-1.0-0/metasens/R/funnel.limitmeta.R | 18 metasens-1.0-0/metasens/R/lfkindex.R | 8 metasens-1.0-0/metasens/R/limitmeta.R | 25 metasens-1.0-0/metasens/R/mean-sd-internal.R |only metasens-1.0-0/metasens/R/meta-aux.R |only metasens-1.0-0/metasens/R/meta-chk.R |only metasens-1.0-0/metasens/R/meta-format.R |only metasens-1.0-0/metasens/R/meta-int.R |only metasens-1.0-0/metasens/R/meta-is.R |only metasens-1.0-0/metasens/R/meta-set.R |only metasens-1.0-0/metasens/R/meta-transf.R |only metasens-1.0-0/metasens/R/meta-xlab.R |only metasens-1.0-0/metasens/R/metamiss.R | 91 +-- metasens-1.0-0/metasens/R/metasens-interal.R | 10 metasens-1.0-0/metasens/R/metasens-package.R | 4 metasens-1.0-0/metasens/R/orbbound.R | 2 metasens-1.0-0/metasens/R/plot.copas.R | 8 metasens-1.0-0/metasens/R/print.copas.R | 210 ++++--- metasens-1.0-0/metasens/R/print.limitmeta.R | 378 +++++++++---- metasens-1.0-0/metasens/R/print.orbbound.R | 73 +- metasens-1.0-0/metasens/R/print.summary.copas.R | 226 ++----- metasens-1.0-0/metasens/R/print.summary.limitmeta.R | 460 +++++----------- metasens-1.0-0/metasens/R/summary.copas.R | 15 metasens-1.0-0/metasens/R/summary.limitmeta.R | 4 metasens-1.0-0/metasens/man/Crowther2003.Rd | 9 metasens-1.0-0/metasens/man/Moore1998.Rd | 6 metasens-1.0-0/metasens/man/copas.Rd | 10 metasens-1.0-0/metasens/man/forest.orbbound.Rd | 8 metasens-1.0-0/metasens/man/funnel.limitmeta.Rd | 10 metasens-1.0-0/metasens/man/limitmeta.Rd | 8 metasens-1.0-0/metasens/man/metamiss.Rd | 11 metasens-1.0-0/metasens/man/metasens-package.Rd | 4 metasens-1.0-0/metasens/man/print.copas.Rd | 84 ++ metasens-1.0-0/metasens/man/print.limitmeta.Rd | 78 ++ metasens-1.0-0/metasens/man/print.orbbound.Rd | 8 metasens-1.0-0/metasens/man/print.summary.copas.Rd | 78 -- metasens-1.0-0/metasens/man/print.summary.limitmeta.Rd | 81 -- metasens-1.0-0/metasens/man/summary.copas.Rd | 2 metasens-1.0-0/metasens/man/summary.limitmeta.Rd | 2 53 files changed, 1161 insertions(+), 1026 deletions(-)
Title: Sequential Parameter Optimization Toolbox
Description: A set of tools for model-based optimization and tuning of
algorithms (hyperparameter tuning). It includes surrogate models, optimizers, and design of experiment
approaches. The main interface is spot, which uses sequentially updated
surrogate models for the purpose of efficient optimization. The main goal is
to ease the burden of objective function evaluations, when a single evaluation
requires a significant amount of resources.
Author: Thomas Bartz-Beielstein [aut, cre]
(<https://orcid.org/0000-0002-5938-5158>),
Martin Zaefferer [aut] (<https://orcid.org/0000-0003-2372-2092>),
Frederik Rehbach [aut] (<https://orcid.org/0000-0003-0922-8629>),
Margarita Rebolledo [ctb],
Joerg Stork [ctb] (0000-0002-7471-3498),
Christian Lasarczyk [ctb]
Maintainer: Thomas Bartz-Beielstein <tbb@bartzundbartz.de>
Diff between SPOT versions 2.5.8 dated 2021-08-04 and 2.5.12 dated 2021-10-22
SPOT-2.5.12/SPOT/DESCRIPTION | 10 SPOT-2.5.12/SPOT/MD5 | 42 ++- SPOT-2.5.12/SPOT/NAMESPACE | 10 SPOT-2.5.12/SPOT/NEWS.md | 9 SPOT-2.5.12/SPOT/R/buildPCA.R |only SPOT-2.5.12/SPOT/R/buildRanger.R | 41 +-- SPOT-2.5.12/SPOT/R/plotPCA.R |only SPOT-2.5.12/SPOT/R/plotPCAvariance.R |only SPOT-2.5.12/SPOT/R/resSpot.R | 9 SPOT-2.5.12/SPOT/R/resSpot2.R | 10 SPOT-2.5.12/SPOT/R/spotTools.R | 7 SPOT-2.5.12/SPOT/build/partial.rdb |binary SPOT-2.5.12/SPOT/build/vignette.rds |binary SPOT-2.5.12/SPOT/inst/doc/SPOTVignetteNutshell.R | 67 +---- SPOT-2.5.12/SPOT/inst/doc/SPOTVignetteNutshell.Rmd | 84 ++----- SPOT-2.5.12/SPOT/inst/doc/SPOTVignetteNutshell.html | 239 ++++++++------------ SPOT-2.5.12/SPOT/man/buildPCA.Rd |only SPOT-2.5.12/SPOT/man/buildRanger.Rd | 8 SPOT-2.5.12/SPOT/man/getNatDesignFromCoded.Rd | 5 SPOT-2.5.12/SPOT/man/plotPCA.Rd |only SPOT-2.5.12/SPOT/man/plotPCAvariance.Rd |only SPOT-2.5.12/SPOT/man/resSpot.Rd | 2 SPOT-2.5.12/SPOT/man/resSpot2.Rd | 2 SPOT-2.5.12/SPOT/vignettes/SPOTVignetteNutshell.Rmd | 84 ++----- SPOT-2.5.12/SPOT/vignettes/SPOTVignetteNutshell.md |only SPOT-2.5.8/SPOT/tests/testthat/Rplots.pdf |only 26 files changed, 265 insertions(+), 364 deletions(-)
Title: R Interface to the 'UNU.RAN' Random Variate Generators
Description: Interface to the 'UNU.RAN' library for Universal Non-Uniform RANdom variate generators.
Thus it allows to build non-uniform random number generators from quite arbitrary
distributions. In particular, it provides an algorithm for fast numerical inversion
for distribution with given density function.
In addition, the package contains densities, distribution functions and quantiles
from a couple of distributions.
Author: Josef Leydold [aut, cre],
Wolfgang H"ormann [aut]
Maintainer: Josef Leydold <josef.leydold@wu.ac.at>
Diff between Runuran versions 0.34 dated 2021-08-11 and 0.35 dated 2021-10-22
DESCRIPTION | 10 MD5 | 34 NEWS | 6 configure | 2840 +++++++++++++++++++---------------- configure.ac | 9 inst/doc/Runuran.pdf |binary man/Runuran-package.Rd | 6 man/unuran-class.Rd | 2 man/unuran.cmv-class.Rd | 2 man/unuran.cont-class.Rd | 2 man/unuran.discr-class.Rd | 2 man/unuran.distr-class.Rd | 2 src/Makevars.in | 2 src/README | 2 src/config.h.in | 13 src/unuran-src/methods/mvtdr_init.ch | 2 vignettes/arvag.bib | 4 vignettes/inputs/version.tex | 2 18 files changed, 1637 insertions(+), 1303 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-25 0.9.1
2021-04-05 0.8.0
2020-11-27 0.7.0
2020-10-31 0.6.0
2020-08-27 0.5.0
2020-06-15 0.4.1
2020-03-01 0.3.0
2020-03-01 0.4.0
2019-09-26 0.2.7
2019-09-23 0.2.6
2019-08-29 0.2.5
2019-07-26 0.2.3
2019-07-26 0.2.4
2019-06-23 0.2.2
2019-05-14 0.2.1
2019-05-13 0.2.0
2019-04-25 0.1.3
2019-04-16 0.1.2
2019-03-29 0.1.1
Title: Steve's Miscellaneous Functions
Description: These are miscellaneous functions that I find useful for my research and teaching.
The contents include themes for plots, functions for simulating
quantities of interest from regression models, functions for simulating various
forms of fake data for instructional/research purposes, and many more. All told, the functions
provided here are broadly useful for data organization, data presentation, data recoding,
and data simulation.
Author: Steve Miller [aut, cre],
Ben Bolker [ctb],
Dave Armstrong [ctb],
John Fox [ctb],
Winston Chang [ctb],
Brian Ripley [ctb],
Bill Venables [ctb],
Pascal van Kooten [ctb],
Gerko Vink [ctb],
Paul Williamson [ctb],
Andreas Beger [ctb] (<https://orcid.org/0000-0003-1883-3169>)
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Diff between stevemisc versions 1.2.0 dated 2021-07-27 and 1.3.0 dated 2021-10-22
DESCRIPTION | 16 ++-- MD5 | 36 ++++++---- NAMESPACE | 5 + NEWS.md | 9 ++ R/corvectors.R | 3 R/data.R | 100 +++++++++++++++++++++++++++++- R/ggplot-themes.R | 2 R/linloess_plot.R |only R/ps_spells.R |only README.md | 46 ++++++------- data/fra_leaderyears.rda |only data/gmy_dyadyears.rda |only data/strategic_rivalries.rda |binary data/usa_mids.rda |binary man/corvectors.Rd | 3 man/figures/README-unnamed-chunk-18-4.png |binary man/fra_leaderyears.Rd |only man/ggplot-themes.Rd | 2 man/gmy_dyadyears.Rd |only man/linloess_plot.Rd |only man/ps_spells.Rd |only man/stevepubs.Rd | 2 man/usa_mids.Rd | 49 +++++++------- 23 files changed, 197 insertions(+), 76 deletions(-)
Title: Who Ever Care About the [Art of R] Scripts?
Description: For instructions, check <https://github.com/Hzhang-ouce/ARTofR>. This is a wrapper of 'bannerCommenter', for generating neat comments!
Author: Huanyuan Zhang [aut, cre] (<https://orcid.org/0000-0003-4801-8771>)
Maintainer: Huanyuan Zhang <hyzhang1996@gmail.com>
Diff between ARTofR versions 0.2.3 dated 2021-10-05 and 0.3.3 dated 2021-10-22
DESCRIPTION | 6 +-- MD5 | 18 ++++----- NAMESPACE | 1 NEWS.md | 8 +++- R/xxx_title.R | 36 ++++++++++++++----- README.md | 26 ++++++++++--- inst/doc/User_guide.Rmd | 89 ++++++++++++++++++++++++----------------------- inst/doc/User_guide.html | 10 ++--- man/xxx_title1.Rd | 13 +++++- vignettes/User_guide.Rmd | 89 ++++++++++++++++++++++++----------------------- 10 files changed, 173 insertions(+), 123 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-13 0.5.0
2021-07-23 0.4.9
2021-06-11 0.4.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-12 0.8.4
2021-07-22 0.8.3
2021-04-06 0.8.2
2021-01-07 0.8.1
2020-10-28 0.8.0
2020-09-04 0.7.2
2020-08-28 0.7.1
2020-08-27 0.7.0
2020-07-08 0.6.2
2020-06-23 0.6.1
2020-05-03 0.6.0
2020-04-06 0.5.2
2020-03-01 0.5.1
2020-01-26 0.5.0
2019-11-23 0.4.1
2019-10-13 0.4.0
2019-09-17 0.3.1
2019-07-30 0.3.0
2019-05-18 0.2.10
2019-05-10 0.2.9
2019-03-22 0.2.8
2019-01-07 0.2.7
2018-10-20 0.2.6
2018-06-02 0.2.5
2018-05-19 0.2.4
2018-03-06 0.2.3
2017-12-19 0.2.2
2017-11-23 0.2.1
2017-07-12 0.1.9
2017-06-02 0.1.8
2017-01-06 0.1.7-3
2016-12-28 0.1.7-2
2016-12-26 0.1.7-1
2016-12-23 0.1.7
2016-11-11 0.1.6
2016-10-26 0.1.5
2016-08-29 0.1.4
2016-05-30 0.1.2
2016-01-16 0.1.1
2016-01-15 0.1.0
2015-11-02 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-22 0.4.7
2021-10-21 0.4.6
2021-10-20 0.4.5
2021-10-19 0.4.4
2021-06-08 0.4.3
2021-02-09 0.4.2
2021-01-27 0.4.1
2021-01-16 0.4.0
2020-07-16 0.3.2
2020-06-23 0.3.1
2020-06-22 0.3
2020-05-12 0.2.2
2020-03-05 0.2.1
2019-07-28 0.2.0
2018-11-20 0.1.8
2018-02-04 0.1.7
2018-01-24 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-28 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-13 0.2.1
2021-05-10 0.2.0
2021-01-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-11 0.5
2021-10-05 0.4
2021-09-20 0.3
2021-08-16 0.2.3
2021-07-28 0.2.2
Title: R Tools for Text Matrices, Embeddings, and Networks
Description: This is a collection of functions optimized for working with
for working with various kinds of text matrices. Focusing on
the text matrix as the primary object – which is represented
either as a base R dense matrix or a 'Matrix' package sparse
matrix – allows for a consistent and intuitive interface
that stays close to the underlying mathematical foundation
of computational text analysis. In particular, the package
includes functions for working with word embeddings,
text networks, and document-term matrices. Methods developed in
Stoltz and Taylor (2019) <doi:10.1007/s42001-019-00048-6>,
Taylor and Stoltz (2020) <doi:10.1007/s42001-020-00075-8>,
Taylor and Stoltz (2020) <doi:10.15195/v7.a23>, and
Stoltz and Taylor (2021) <doi:10.1016/j.poetic.2021.101567>.
Author: Dustin Stoltz [aut, cre] (<https://orcid.org/0000-0002-4774-0765>),
Marshall Taylor [aut] (<https://orcid.org/0000-0002-7440-0723>)
Maintainer: Dustin Stoltz <dss219@lehigh.edu>
Diff between text2map versions 0.1.0 dated 2021-08-24 and 0.1.1 dated 2021-10-22
DESCRIPTION | 25 - MD5 | 73 ++-- NEWS.md |only R/CMDist.R | 27 - R/CoCA.R | 347 ++++++++++----------- R/data.R | 28 + R/utils-dtm.R | 440 ++++++++++++++++++--------- R/utils-embedding.R | 85 +++-- R/utils.R | 26 - README.md | 33 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/CMDist-concept-movers-distance.Rmd | 2 inst/doc/CMDist-concept-movers-distance.html | 6 inst/doc/concept-class-analysis.html | 4 man/CMDist.Rd | 24 - man/CoCA.Rd | 31 - man/anchor_lists.Rd | 12 man/dtm_builder.Rd | 70 ++-- man/dtm_resampler.Rd | 23 + man/dtm_stats.Rd | 8 man/dtm_stopper.Rd | 81 +++- man/find_projection.Rd | 2 man/find_rejection.Rd | 9 man/get_anchors.Rd | 34 +- man/get_centroid.Rd | 3 man/get_direction.Rd | 7 man/get_regions.Rd | 21 - man/get_stoplist.Rd | 20 - man/jfk_speech.Rd | 2 man/plot.CoCA.Rd | 2 man/stoplists.Rd | 15 man/text2map-package.Rd | 15 man/vocab_builder.Rd | 9 tests/testthat/helper-data.R | 21 - tests/testthat/test-CMDist-parallel.R | 5 tests/testthat/test-utils-dtm.R | 162 ++++++++- vignettes/CMDist-concept-movers-distance.Rmd | 2 38 files changed, 1045 insertions(+), 629 deletions(-)
Title: Statistical Methods for Archaeology
Description: Statistical pattern recognition and dating using archaeological artefacts assemblages.
Package of statistical tools for archaeology.
hclustcompro(perioclust): Bellanger Lise, Coulon Arthur, Husi Philippe (2020, ISBN:978-3-030-60103-4).
mapclust: Bellanger Lise, Coulon Arthur, Husi Philippe (2021) <doi:10.1016/j.jas.2021.105431>.
seriograph: Desachy Bruno (2004) <doi:10.3406/pica.2004.2396>.
Author: Lise Bellanger [aut],
Philippe Husi [aut],
Arthur Coulon [aut, cre],
Bruno Desachy [ctb],
Benjamin Martineau [ctb]
Maintainer: Arthur Coulon <arthur-coulon@outlook.fr>
Diff between SPARTAAS versions 1.0.0 dated 2021-02-22 and 1.1.0 dated 2021-10-22
SPARTAAS-1.0.0/SPARTAAS/R/perio.app.R |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/Consol.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/Plabel.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/dedroCut.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/dendro.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/import.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/importMulti.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/importUni.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/map.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/map2.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/sil2.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/summary.PNG |only SPARTAAS-1.0.0/SPARTAAS/inst/shiny-examples/perio.app |only SPARTAAS-1.1.0/SPARTAAS/DESCRIPTION | 13 SPARTAAS-1.1.0/SPARTAAS/MD5 | 165 ++- SPARTAAS-1.1.0/SPARTAAS/NAMESPACE | 11 SPARTAAS-1.1.0/SPARTAAS/R/hclustcompro.app.R |only SPARTAAS-1.1.0/SPARTAAS/R/map.app.R |only SPARTAAS-1.1.0/SPARTAAS/R/mapclust.R |only SPARTAAS-1.1.0/SPARTAAS/R/perioclust.R | 433 +++++----- SPARTAAS-1.1.0/SPARTAAS/R/serio.app.R |only SPARTAAS-1.1.0/SPARTAAS/R/util.R | 253 +++-- SPARTAAS-1.1.0/SPARTAAS/build/partial.rdb |binary SPARTAAS-1.1.0/SPARTAAS/data/dataceram.RData |only SPARTAAS-1.1.0/SPARTAAS/data/datangkor.RData |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/hclustcompro.app |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/server.R | 257 +++++ SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/ui.R | 74 - SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/Consol.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/Plabel.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/dedroCut.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/dendro.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/import.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/importMulti.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/importUni.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/map.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/map2.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/sil2.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/GS/summary.png |only SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/map.app/www/tree.png |binary SPARTAAS-1.1.0/SPARTAAS/inst/shiny-examples/serio.app |only SPARTAAS-1.1.0/SPARTAAS/man/CAdist.Rd | 20 SPARTAAS-1.1.0/SPARTAAS/man/SPARTAAS-package.Rd | 50 - SPARTAAS-1.1.0/SPARTAAS/man/adjacency.Rd | 10 SPARTAAS-1.1.0/SPARTAAS/man/arrondi.Rd | 118 +- SPARTAAS-1.1.0/SPARTAAS/man/datacancer.Rd | 2 SPARTAAS-1.1.0/SPARTAAS/man/dataceram.Rd |only SPARTAAS-1.1.0/SPARTAAS/man/datangkor.Rd |only SPARTAAS-1.1.0/SPARTAAS/man/datarcheo.Rd | 68 - SPARTAAS-1.1.0/SPARTAAS/man/hclust.Rd | 158 +-- SPARTAAS-1.1.0/SPARTAAS/man/hclustcompro.Rd | 36 SPARTAAS-1.1.0/SPARTAAS/man/hclustcompro_app.Rd | 74 - SPARTAAS-1.1.0/SPARTAAS/man/hclustcompro_detail_resampling.Rd | 34 SPARTAAS-1.1.0/SPARTAAS/man/hclustcompro_select_alpha.Rd | 60 - SPARTAAS-1.1.0/SPARTAAS/man/hclustcompro_subdivide.Rd | 27 SPARTAAS-1.1.0/SPARTAAS/man/mapclust.Rd |only SPARTAAS-1.1.0/SPARTAAS/man/mapclust_app.Rd |only SPARTAAS-1.1.0/SPARTAAS/man/mapclust_cut_tree.Rd |only SPARTAAS-1.1.0/SPARTAAS/man/overlap.Rd | 10 SPARTAAS-1.1.0/SPARTAAS/man/serio_app.Rd |only SPARTAAS-1.1.0/SPARTAAS/man/seriograph.Rd | 77 - SPARTAAS-1.1.0/SPARTAAS/man/timerange.Rd | 8 62 files changed, 1088 insertions(+), 870 deletions(-)
Title: Probabilistic Forecast Combination Using CRPS Learning
Description: Combine probabilistic forecasts using CRPS learning algorithms proposed in Berrisch, Ziel (2021) <arXiv:2102.00968>. The package implements multiple online learning algorithms like Bernstein online aggregation; see Wintenberger (2014) <arXiv:1404.1356>. Quantile regression is also implemented for comparison purposes. Model parameters can be tuned automatically with respect to the loss of the forecast combination. Methods like predict(), update(), plot() and print() are available for convenience. This package utilizes the optim C++ library for numeric optimization <https://github.com/kthohr/optim>.
Author: Jonathan Berrisch [cre] (<https://orcid.org/0000-0002-4944-9074>),
Florian Ziel [aut] (<https://orcid.org/0000-0002-2974-2660>)
Maintainer: Jonathan Berrisch <Jonathan@Berrisch.biz>
Diff between profoc versions 0.8.4 dated 2021-09-15 and 0.8.5 dated 2021-10-22
DESCRIPTION | 8 - MD5 | 34 ++--- NEWS.md | 13 ++ R/RcppExports.R | 24 +-- R/batch.R | 101 ++++++++++++---- R/online.R | 158 +++++++++++++++++++------ build/partial.rdb |binary inst/include/misc.h | 9 - inst/include/splines.h | 22 +-- man/online.Rd | 4 src/RcppExports.cpp | 111 +++++------------ src/batch.cpp | 107 ++--------------- src/misc.cpp | 28 +++- src/online.cpp | 182 +++++------------------------ src/oracle.cpp | 4 src/splines.cpp | 54 +++----- tests/testthat/test-combination_sampling.R | 10 - tests/testthat/test-init_weights.R | 10 - 18 files changed, 403 insertions(+), 476 deletions(-)
Title: Automatic Time Series Analysis and Forecasting Using the Ata
Method
Description: The Ata method (Yapar et al. (2019) <doi:10.15672/hujms.461032>), an alternative to exponential smoothing (described in Yapar (2016) <doi:10.15672/HJMS.201614320580>,
Yapar et al. (2017) <doi:10.15672/HJMS.2017.493>), is a new univariate time series forecasting method which provides innovative solutions to issues faced during the
initialization and optimization stages of existing forecasting methods. Forecasting performance of the Ata method is superior to existing methods both in terms of easy
implementation and accurate forecasting. It can be applied to non-seasonal or seasonal time series which can be decomposed into four components (remainder, level, trend
and seasonal). This methodology performed well on the M3 and M4-competition data. This package was written based on Ali Sabri Taylan’s PhD dissertation.
Author: Ali Sabri Taylan [aut, cre, cph]
(<https://orcid.org/0000-0001-9514-934X>),
Hanife Taylan Selamlar [aut, cph]
(<https://orcid.org/0000-0002-4091-884X>),
Guckan Yapar [aut, ths, cph] (<https://orcid.org/0000-0002-0971-6676>)
Maintainer: Ali Sabri Taylan <alisabritaylan@gmail.com>
Diff between ATAforecasting versions 0.0.54 dated 2021-10-20 and 0.0.55 dated 2021-10-22
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/SubATA_Multiple.R | 4 ++-- R/SubATA_MultipleO.R | 4 ++-- build/partial.rdb |binary 5 files changed, 13 insertions(+), 13 deletions(-)
More information about ATAforecasting at CRAN
Permanent link
Title: Variance Components Testing for Linear and Nonlinear Mixed
Effects Models
Description: An implementation of the Likelihood ratio Test (LRT) for testing that,
in a (non)linear mixed effects model, the variances of a subset of the random
effects are equal to zero. There is no restriction on the subset of variances
that can be tested: for example, it is possible to test that all the variances
are equal to zero. Note that the implemented test is asymptotic.
This package should be used on model fits from packages 'nlme', 'lmer', and 'saemix'.
Charlotte Baey, Paul-Henry Cournède and Estelle Kuhn (2019) <doi:10.1016/j.csda.2019.01.014>.
Author: Charlotte Baey [aut, cre] (<https://orcid.org/0000-0002-1413-1058>),
Estelle Kuhn [aut]
Maintainer: Charlotte Baey <charlotte.baey@univ-lille.fr>
Diff between varTestnlme versions 1.1.0 dated 2021-10-11 and 1.1.1 dated 2021-10-22
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- NEWS.md | 4 ++++ R/lme4_utilities.R | 6 +++--- R/lme_utilities.R | 6 +++--- README.md | 14 ++++++-------- 6 files changed, 27 insertions(+), 25 deletions(-)
Title: Permutation Tests for Regression, (Repeated Measures)
ANOVA/ANCOVA and Comparison of Signals
Description: Functions to compute p-values based on permutation tests. Regression, ANOVA and ANCOVA, omnibus F-tests, marginal unilateral and bilateral t-tests are available. Several methods to handle nuisance variables are implemented (Kherad-Pajouh, S., & Renaud, O. (2010) <doi:10.1016/j.csda.2010.02.015> ; Kherad-Pajouh, S., & Renaud, O. (2014) <doi:10.1007/s00362-014-0617-3> ; Winkler, A. M., Ridgway, G. R., Webster, M. A., Smith, S. M., & Nichols, T. E. (2014) <doi:10.1016/j.neuroimage.2014.01.060>). An extension for the comparison of signals issued from experimental conditions (e.g. EEG/ERP signals) is provided. Several corrections for multiple testing are possible, including the cluster-mass statistic (Maris, E., & Oostenveld, R. (2007) <doi:10.1016/j.jneumeth.2007.03.024>) and the threshold-free cluster enhancement (Smith, S. M., & Nichols, T. E. (2009) <doi:10.1016/j.neuroimage.2008.03.061>).
Author: Jaromil Frossard [aut, cre],
Olivier Renaud [aut]
Maintainer: Jaromil Frossard <jaromil.frossard@unige.ch>
Diff between permuco versions 1.1.0 dated 2019-12-19 and 1.1.1 dated 2021-10-22
permuco-1.1.0/permuco/NEWS |only permuco-1.1.0/permuco/R/cluster_fit_model.R |only permuco-1.1.0/permuco/R/cluster_nuisance_var.R |only permuco-1.1.0/permuco/R/cluster_nuisance_var_rnd.R |only permuco-1.1.0/permuco/R/cluster_private.R |only permuco-1.1.0/permuco/R/cluster_public.R |only permuco-1.1.0/permuco/R/fit_model.R |only permuco-1.1.0/permuco/R/nuisance_var.R |only permuco-1.1.0/permuco/R/nuisance_var_rnd.R |only permuco-1.1.0/permuco/R/private.R |only permuco-1.1.0/permuco/R/public.R |only permuco-1.1.0/permuco/vignettes/permuco_tutorial_01.pdf |only permuco-1.1.1/permuco/DESCRIPTION | 24 permuco-1.1.1/permuco/MD5 | 149 ++-- permuco-1.1.1/permuco/NAMESPACE | 12 permuco-1.1.1/permuco/NEWS.md |only permuco-1.1.1/permuco/R/Pmat.R |only permuco-1.1.1/permuco/R/Pmat_product.R |only permuco-1.1.1/permuco/R/RcppExports.R |only permuco-1.1.1/permuco/R/anova_table.R |only permuco-1.1.1/permuco/R/anova_table_rnd.R |only permuco-1.1.1/permuco/R/aovperm.R |only permuco-1.1.1/permuco/R/aovperm_fix.R | 19 permuco-1.1.1/permuco/R/aovperm_rnd.R | 12 permuco-1.1.1/permuco/R/as.Pmat.R |only permuco-1.1.1/permuco/R/assign.Pmat.R |only permuco-1.1.1/permuco/R/changeContrast.R |only permuco-1.1.1/permuco/R/checkBalancedData.R |only permuco-1.1.1/permuco/R/check_P.R |only permuco-1.1.1/permuco/R/check_distribution.R |only permuco-1.1.1/permuco/R/cluster_methods.R | 494 +++++++------- permuco-1.1.1/permuco/R/cluster_methods_rnd.R |only permuco-1.1.1/permuco/R/cluster_table.R | 4 permuco-1.1.1/permuco/R/cluster_table_clustermass.R |only permuco-1.1.1/permuco/R/clusterlm.R |only permuco-1.1.1/permuco/R/clusterlm_fix.R | 26 permuco-1.1.1/permuco/R/clusterlm_rnd.R | 12 permuco-1.1.1/permuco/R/compute_all_pvalue.R |only permuco-1.1.1/permuco/R/compute_benjamini_hochberg.R |only permuco-1.1.1/permuco/R/compute_bonferroni.R |only permuco-1.1.1/permuco/R/compute_clusterdepth.R |only permuco-1.1.1/permuco/R/compute_clusterdepth_head.R |only permuco-1.1.1/permuco/R/compute_clustermass.R |only permuco-1.1.1/permuco/R/compute_degree_freedom_fix.R |only permuco-1.1.1/permuco/R/compute_degree_freedom_rnd.R |only permuco-1.1.1/permuco/R/compute_holm.R |only permuco-1.1.1/permuco/R/compute_maxT.R |only permuco-1.1.1/permuco/R/compute_minP.R |only permuco-1.1.1/permuco/R/compute_pvalue.R |only permuco-1.1.1/permuco/R/compute_stepdownmaxT.R |only permuco-1.1.1/permuco/R/compute_tfce.R |only permuco-1.1.1/permuco/R/compute_tfce_statistic.R |only permuco-1.1.1/permuco/R/compute_troendle.R |only permuco-1.1.1/permuco/R/data.R | 4 permuco-1.1.1/permuco/R/depth_distribution.R |only permuco-1.1.1/permuco/R/distribution_to_pscale.R |only permuco-1.1.1/permuco/R/effect_anova_rnd.R |only permuco-1.1.1/permuco/R/full_table.R | 1 permuco-1.1.1/permuco/R/get_cluster.R |only permuco-1.1.1/permuco/R/khatrirao.R |only permuco-1.1.1/permuco/R/link.R |only permuco-1.1.1/permuco/R/lmperm.R |only permuco-1.1.1/permuco/R/lmperm_fix.R | 14 permuco-1.1.1/permuco/R/methods.R | 303 +++++--- permuco-1.1.1/permuco/R/methods_rnd.R |only permuco-1.1.1/permuco/R/np.R |only permuco-1.1.1/permuco/R/old_cluster_methods.R |only permuco-1.1.1/permuco/R/old_cluster_private.R |only permuco-1.1.1/permuco/R/plot.clusterlm.R |only permuco-1.1.1/permuco/R/plot.lmperm.R |only permuco-1.1.1/permuco/R/print.clusterlm.R |only permuco-1.1.1/permuco/R/print.listof_multcomp_table.R |only permuco-1.1.1/permuco/R/print.lmperm.R |only permuco-1.1.1/permuco/R/print.lmpermutation_table.R |only permuco-1.1.1/permuco/R/print.multcomp_table.R |only permuco-1.1.1/permuco/R/summary.clusterlm.R |only permuco-1.1.1/permuco/R/summary.lmperm.R |only permuco-1.1.1/permuco/R/switch_multcomp.R |only permuco-1.1.1/permuco/README.md | 158 +++- permuco-1.1.1/permuco/build/vignette.rds |binary permuco-1.1.1/permuco/inst/CITATION |only permuco-1.1.1/permuco/inst/doc/permuco_tutorial.pdf |binary permuco-1.1.1/permuco/inst/doc/permuco_tutorial.pdf.asis | 1 permuco-1.1.1/permuco/man/Pmat.Rd | 109 +-- permuco-1.1.1/permuco/man/Pmat_product.Rd |only permuco-1.1.1/permuco/man/aovperm.Rd | 213 +++--- permuco-1.1.1/permuco/man/as.Pmat.Rd | 32 permuco-1.1.1/permuco/man/attentionshifting_design.Rd | 59 - permuco-1.1.1/permuco/man/attentionshifting_signal.Rd | 45 - permuco-1.1.1/permuco/man/clusterlm.Rd | 220 +++--- permuco-1.1.1/permuco/man/compute_clusterdepth.Rd |only permuco-1.1.1/permuco/man/compute_clusterdepth_head.Rd |only permuco-1.1.1/permuco/man/compute_clustermass.Rd | 57 - permuco-1.1.1/permuco/man/compute_maxT.Rd |only permuco-1.1.1/permuco/man/compute_minP.Rd | 43 - permuco-1.1.1/permuco/man/compute_stepdownmaxT.Rd |only permuco-1.1.1/permuco/man/compute_tfce.Rd | 53 - permuco-1.1.1/permuco/man/compute_troendle.Rd | 43 - permuco-1.1.1/permuco/man/emergencycost.Rd | 59 - permuco-1.1.1/permuco/man/get_cluster.Rd |only permuco-1.1.1/permuco/man/jpah2016.Rd | 65 + permuco-1.1.1/permuco/man/lmperm.Rd | 154 ++-- permuco-1.1.1/permuco/man/plot.clusterlm.Rd | 91 +- permuco-1.1.1/permuco/man/plot.lmperm.Rd | 49 - permuco-1.1.1/permuco/man/print.clusterlm.Rd | 45 - permuco-1.1.1/permuco/man/summary.clusterlm.Rd | 73 +- permuco-1.1.1/permuco/src |only permuco-1.1.1/permuco/tests |only permuco-1.1.1/permuco/vignettes/permuco_tutorial.pdf.asis | 1 109 files changed, 1544 insertions(+), 1100 deletions(-)
Title: Mutation Models for Pedigree Likelihood Computations
Description: A collection of functions for modelling mutations in pedigrees with
marker data, as used e.g. in likelihood computations with microsatellite data.
Implemented models include proportional and stepwise models, as well as random
models for experimental work, and custom models allowing the user to apply any
valid mutation matrix. Allele lumping is done following the lumpability criteria
of Kemeny and Snell (1976), ISBN:0387901922.
Author: Magnus Dehli Vigeland [aut, cre]
(<https://orcid.org/0000-0002-9134-4962>)
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedmut versions 0.2.0 dated 2020-07-30 and 0.3.0 dated 2021-10-22
pedmut-0.2.0/pedmut/man/figures/README-pedmut-example-1.png |only pedmut-0.3.0/pedmut/DESCRIPTION | 9 - pedmut-0.3.0/pedmut/MD5 | 24 +- pedmut-0.3.0/pedmut/NEWS.md | 5 pedmut-0.3.0/pedmut/R/mutationMatrix.R | 2 pedmut-0.3.0/pedmut/R/mutationModel.R | 4 pedmut-0.3.0/pedmut/R/pedmut-package.R |only pedmut-0.3.0/pedmut/README.md | 101 ++++++------ pedmut-0.3.0/pedmut/man/figures/README-ex1-ped-1.png |only pedmut-0.3.0/pedmut/man/mutationMatrix.Rd | 2 pedmut-0.3.0/pedmut/man/pedmut.Rd |only pedmut-0.3.0/pedmut/tests/testthat/test-lumping.R | 1 pedmut-0.3.0/pedmut/tests/testthat/test-mutationMatrix.R | 1 pedmut-0.3.0/pedmut/tests/testthat/test-mutationModel.R | 1 pedmut-0.3.0/pedmut/tests/testthat/test-properties.R | 1 15 files changed, 77 insertions(+), 74 deletions(-)
Title: Inference of Gene Regulatory Networks
Description: We present 'corto' (Correlation Tool), a simple package to infer
gene regulatory networks and visualize master regulators from gene expression
data using DPI (Data Processing Inequality) and bootstrapping to recover edges.
An initial step is performed to calculate all significant
edges between a list of source nodes (centroids) and target genes.
Then all triplets containing two centroids and one target are tested
in a DPI step which removes edges. A bootstrapping process then calculates
the robustness of the network, eventually re-adding edges previously removed by DPI.
The algorithm has been optimized to run outside a computing cluster, using a fast correlation
implementation. The package finally provides functions to calculate network enrichment
analysis from RNA-Seq and ATAC-Seq signatures as described in the article by
Giorgi lab (2020) <doi:10.1093/bioinformatics/btaa223>.
Author: Federico M. Giorgi [aut, cre],
Daniele Mercatelli [ctb],
Gonzalo Lopez-Garcia [ctb]
Maintainer: Federico M. Giorgi <federico.giorgi@gmail.com>
Diff between corto versions 1.1.9 dated 2021-09-29 and 1.1.10 dated 2021-10-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- README.md | 6 +++--- inst/doc/corto_vignette.Rmd | 6 +++--- inst/doc/corto_vignette.html | 8 ++++---- vignettes/corto_vignette.Rmd | 6 +++--- 6 files changed, 21 insertions(+), 21 deletions(-)
Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') for
temporal data in an data- and model-oriented format. The 'tsibble'
provides tools to easily manipulate and analyse temporal data, such as
filling in time gaps and aggregating over calendar periods.
Author: Earo Wang [aut, cre] (<https://orcid.org/0000-0001-6448-5260>),
Di Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>),
Rob Hyndman [aut, ths] (<https://orcid.org/0000-0002-2140-5352>),
Mitchell O'Hara-Wild [aut] (<https://orcid.org/0000-0001-6729-7695>),
Tyler Smith [ctb],
Wil Davis [ctb]
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between tsibble versions 1.0.1 dated 2021-04-12 and 1.1.0 dated 2021-10-22
DESCRIPTION | 6 - MD5 | 82 +++++++-------- NAMESPACE | 9 - NEWS.md | 11 ++ R/as-tsibble.R | 16 ++ R/dplyr-verbs.R | 8 + R/filter-index.R | 10 + R/gaps.R | 126 +++++++++++++++-------- R/holiday.R | 16 -- R/reexports.R | 8 - R/rolling.R | 3 R/tsibble2ts.R | 7 - R/yearmonth.R | 19 +++ R/yearquarter.R | 9 + R/yearweek.R | 9 + R/zzz.R | 2 build/tsibble.pdf |binary build/vignette.rds |binary inst/doc/faq.R | 2 inst/doc/faq.Rmd | 2 inst/doc/faq.html | 198 ++++++++++++++++++------------------- inst/doc/implicit-na.R | 2 inst/doc/implicit-na.Rmd | 2 inst/doc/implicit-na.html | 138 ++++++++++++------------- inst/doc/intro-tsibble.R | 2 inst/doc/intro-tsibble.Rmd | 2 inst/doc/intro-tsibble.html | 126 +++++++++++------------ man/count_gaps.Rd | 14 ++ man/fill_gaps.Rd | 6 - man/has_gaps.Rd | 8 + man/reexports.Rd | 4 man/scan_gaps.Rd | 8 + man/slide_tsibble.Rd | 1 man/stretch_tsibble.Rd | 1 man/tile_tsibble.Rd | 1 man/year-month.Rd | 6 + tests/testthat/test-filter-index.R | 5 tests/testthat/test-tsibble2ts.R | 6 + tests/testthat/test-yearmonth.R | 5 vignettes/faq.Rmd | 2 vignettes/implicit-na.Rmd | 2 vignettes/intro-tsibble.Rmd | 2 42 files changed, 519 insertions(+), 367 deletions(-)
Title: Docker Client
Description: Work with containers over the Docker API. Rather than
using system calls to interact with a docker client, using the
API directly means that we can receive richer information from
docker. The interface in the package is automatically generated
using the 'OpenAPI' (a.k.a., 'swagger') specification, and all
return values are checked in order to make them type stable.
Author: Rich FitzJohn [aut, cre]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between stevedore versions 0.9.3 dated 2020-01-12 and 0.9.4 dated 2021-10-22
DESCRIPTION | 8 MD5 | 44 R/docker_client_support.R | 2 R/stevedore.R | 2 R/swagger_types.R | 2 README.md | 4 build/stevedore.pdf |binary build/vignette.rds |binary inst/doc/cookbook.html | 539 ++++--- inst/doc/examples.html | 639 ++++---- inst/doc/stevedore.Rmd | 2 inst/doc/stevedore.html | 1784 ++++++++----------------- man/stevedore.Rd | 2 tests/testthat/helper-stevedore.R | 11 tests/testthat/test-docker-client-containers.R | 16 tests/testthat/test-docker-client-services.R | 6 tests/testthat/test-docker-client.R | 10 tests/testthat/test-http-compat.R | 7 tests/testthat/test-http-curl.R | 14 tests/testthat/test-http-httppipe.R | 2 tests/testthat/test-httppipe-unix.R | 12 tests/testthat/test-util.R | 12 vignettes/stevedore.Rmd | 2 23 files changed, 1397 insertions(+), 1723 deletions(-)
Title: Tools for the Analysis of Air Pollution Data
Description: Tools to analyse, interpret and understand air
pollution data. Data are typically hourly time series
and both monitoring data and dispersion model output
can be analysed. Many functions can also be applied to
other data, including meteorological and traffic data.
Author: David Carslaw [aut, cre],
Karl Ropkins [aut]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between openair versions 2.8-4 dated 2021-09-15 and 2.8-5 dated 2021-10-22
DESCRIPTION | 8 +- MD5 | 12 +-- R/polarPlot.R | 94 +++++++++++++++++++++++++++++- R/selectRunning.R | 158 ++++++++++++++++++++++++++++----------------------- R/windRose.R | 12 +++ R/zzz.R | 2 man/selectRunning.Rd | 21 +++++- 7 files changed, 217 insertions(+), 90 deletions(-)
Title: Multimodal and Multilevel Network Analysis
Description: A set of tools that extend common social network analysis packages
for analysing multimodal and multilevel networks.
It includes functions for one- and two-mode (and sometimes three-mode)
centrality, centralization, clustering, and constraint,
as well as for one- and two-mode network regression and block-modelling.
All functions operate with matrices, edge lists,
and 'igraph', 'network'/'sna', and 'tidygraph' objects.
The package is released as a complement to
'Multimodal Political Networks' (2021, ISBN:9781108985000),
and includes various datasets used in the book.
Author: James Hollway [cph, cre, aut, ctb] (IHEID,
<https://orcid.org/0000-0002-8361-9647>)
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between migraph versions 0.7.1 dated 2021-09-25 and 0.8.1 dated 2021-10-22
migraph-0.7.1/migraph/R/clustering.R |only migraph-0.7.1/migraph/R/plot.R |only migraph-0.7.1/migraph/R/plot_releases.R |only migraph-0.7.1/migraph/R/read_ucinet.R |only migraph-0.7.1/migraph/man/graph_clustering.Rd |only migraph-0.7.1/migraph/man/plot.blockmodel.Rd |only migraph-0.7.1/migraph/man/plot.igraph.Rd |only migraph-0.7.1/migraph/man/plot_releases.Rd |only migraph-0.7.1/migraph/tests/testthat/test-clustering.R |only migraph-0.7.1/migraph/tests/testthat/test-plot_releases.R |only migraph-0.8.1/migraph/DESCRIPTION | 17 migraph-0.8.1/migraph/MD5 | 145 +++++--- migraph-0.8.1/migraph/NAMESPACE | 111 +++++- migraph-0.8.1/migraph/NEWS.md | 126 ++++++- migraph-0.8.1/migraph/R/autographr.R |only migraph-0.8.1/migraph/R/balance.R |only migraph-0.8.1/migraph/R/blockmodel.R | 120 +++++- migraph-0.8.1/migraph/R/blockmodel_visualisation.R |only migraph-0.8.1/migraph/R/census.R |only migraph-0.8.1/migraph/R/centralization.R | 103 +++-- migraph-0.8.1/migraph/R/coercion.R | 88 ++-- migraph-0.8.1/migraph/R/cohesion.R |only migraph-0.8.1/migraph/R/constraint.R | 46 +- migraph-0.8.1/migraph/R/create.R | 105 ++--- migraph-0.8.1/migraph/R/data_brandes.R |only migraph-0.8.1/migraph/R/data_bristol.R | 4 migraph-0.8.1/migraph/R/data_coleman.R |only migraph-0.8.1/migraph/R/data_elite.R | 42 +- migraph-0.8.1/migraph/R/data_evs.R | 6 migraph-0.8.1/migraph/R/data_karateka.R |only migraph-0.8.1/migraph/R/data_m182.R |only migraph-0.8.1/migraph/R/data_marvel.R |only migraph-0.8.1/migraph/R/data_projection.R |only migraph-0.8.1/migraph/R/data_ryanair.R | 21 - migraph-0.8.1/migraph/R/data_senate112.R | 27 - migraph-0.8.1/migraph/R/data_southern_women.R | 4 migraph-0.8.1/migraph/R/generate.R | 22 - migraph-0.8.1/migraph/R/ggevolution.R | 99 ++++- migraph-0.8.1/migraph/R/ggidentify.R |only migraph-0.8.1/migraph/R/gglineage.R | 31 + migraph-0.8.1/migraph/R/ggraphgrid.R | 107 ++--- migraph-0.8.1/migraph/R/is.R | 22 - migraph-0.8.1/migraph/R/netlm.R | 82 ++-- migraph-0.8.1/migraph/R/project.R | 18 - migraph-0.8.1/migraph/R/read.R |only migraph-0.8.1/migraph/R/reexports_ggplot2.R |only migraph-0.8.1/migraph/R/reexports_tidygraph.R | 16 migraph-0.8.1/migraph/R/smallworld.R | 45 +- migraph-0.8.1/migraph/R/sysdata.rda |only migraph-0.8.1/migraph/R/to.R | 252 ++++++++++++-- migraph-0.8.1/migraph/README.md | 19 - migraph-0.8.1/migraph/build |only migraph-0.8.1/migraph/data/brandes.rda |only migraph-0.8.1/migraph/data/ison_bb.rda |only migraph-0.8.1/migraph/data/ison_bm.rda |only migraph-0.8.1/migraph/data/ison_coleman.rda |only migraph-0.8.1/migraph/data/ison_karateka.rda |only migraph-0.8.1/migraph/data/ison_m182.rda |only migraph-0.8.1/migraph/data/ison_marvel_relationships.rda |only migraph-0.8.1/migraph/data/ison_marvel_teams.rda |only migraph-0.8.1/migraph/data/ison_mb.rda |only migraph-0.8.1/migraph/data/ison_mm.rda |only migraph-0.8.1/migraph/inst/doc |only migraph-0.8.1/migraph/man/autographr.Rd |only migraph-0.8.1/migraph/man/blockmodel.Rd | 24 + migraph-0.8.1/migraph/man/blockmodel_visualisation.Rd |only migraph-0.8.1/migraph/man/brandes.Rd |only migraph-0.8.1/migraph/man/census.Rd |only migraph-0.8.1/migraph/man/centrality.Rd | 2 migraph-0.8.1/migraph/man/centralization.Rd | 6 migraph-0.8.1/migraph/man/coercion.Rd | 11 migraph-0.8.1/migraph/man/cohesion.Rd |only migraph-0.8.1/migraph/man/create.Rd | 10 migraph-0.8.1/migraph/man/generate.Rd | 2 migraph-0.8.1/migraph/man/ggatyear.Rd |only migraph-0.8.1/migraph/man/ggevolution.Rd | 2 migraph-0.8.1/migraph/man/ggidentify.Rd |only migraph-0.8.1/migraph/man/graph_balance.Rd |only migraph-0.8.1/migraph/man/graph_triad_census.Rd |only migraph-0.8.1/migraph/man/is.Rd | 9 migraph-0.8.1/migraph/man/ison_coleman.Rd |only migraph-0.8.1/migraph/man/ison_community.Rd |only migraph-0.8.1/migraph/man/ison_marvel.Rd |only migraph-0.8.1/migraph/man/ison_projection.Rd |only migraph-0.8.1/migraph/man/marvel.Rd |only migraph-0.8.1/migraph/man/mpn_evs.Rd | 6 migraph-0.8.1/migraph/man/mpn_ryanair.Rd | 17 migraph-0.8.1/migraph/man/mpn_senate112.Rd | 27 - migraph-0.8.1/migraph/man/netlm.Rd | 21 - migraph-0.8.1/migraph/man/node_constraint.Rd | 11 migraph-0.8.1/migraph/man/node_smallworld.Rd | 21 - migraph-0.8.1/migraph/man/read.Rd | 17 migraph-0.8.1/migraph/man/reexports.Rd | 15 migraph-0.8.1/migraph/man/to.Rd | 42 ++ migraph-0.8.1/migraph/tests/testthat/Rplots.pdf |binary migraph-0.8.1/migraph/tests/testthat/test-balance.R |only migraph-0.8.1/migraph/tests/testthat/test-cohesion.R |only migraph-0.8.1/migraph/tests/testthat/test-ggidentify.R |only migraph-0.8.1/migraph/tests/testthat/test-gglineage.R | 24 + migraph-0.8.1/migraph/vignettes |only 100 files changed, 1328 insertions(+), 617 deletions(-)
Title: Validate 'JSON' Schema
Description: Uses the node library 'is-my-json-valid' or 'ajv' to
validate 'JSON' against a 'JSON' schema. Drafts 04, 06 and 07 of
'JSON' schema are supported.
Author: Rich FitzJohn [aut, cre],
Rob Ashton [aut],
Alicia Schep [ctb],
Ian Lyttle [ctb],
Kara Woo [ctb],
Mathias Buus [cph],
Evgeny Poberezkin [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between jsonvalidate versions 1.1.0 dated 2019-06-25 and 1.3.1 dated 2021-10-22
DESCRIPTION | 22 MD5 | 34 NEWS.md | 15 R/read.R |only R/util.R |only R/validate.R | 343 R/zzz.R |only README.md | 38 build/vignette.rds |binary inst/LICENSE.ajv | 2 inst/WORDLIST |only inst/bundle.js |14467 ++++++++++++++++++++++++---------------- inst/doc/jsonvalidate.R | 51 inst/doc/jsonvalidate.Rmd | 45 inst/doc/jsonvalidate.html | 71 man/json_validate.Rd | 48 man/json_validator.Rd | 74 tests/testthat/test-read.R |only tests/testthat/test-util.R |only tests/testthat/test-validator.R | 562 + vignettes/jsonvalidate.Rmd | 45 21 files changed, 9816 insertions(+), 6001 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] (<https://orcid.org/0000-0002-2089-3956>),
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 1.14.0 dated 2021-07-23 and 1.15.0 dated 2021-10-22
spant-1.14.0/spant/man/comb_csv_results.Rd |only spant-1.15.0/spant/DESCRIPTION | 16 - spant-1.15.0/spant/MD5 | 213 +++++++-------- spant-1.15.0/spant/NAMESPACE | 4 spant-1.15.0/spant/NEWS.md | 11 spant-1.15.0/spant/R/abfit.R | 21 + spant-1.15.0/spant/R/basis_set.R | 72 ++++- spant-1.15.0/spant/R/fitting.R | 15 + spant-1.15.0/spant/R/mrs_data_proc.R | 29 +- spant-1.15.0/spant/R/rats.R | 2 spant-1.15.0/spant/R/svs_batch_fit.R | 23 + spant-1.15.0/spant/R/utils.R | 83 +++-- spant-1.15.0/spant/R/varpro.R | 6 spant-1.15.0/spant/R/varpro_3_para.R | 6 spant-1.15.0/spant/R/varpro_basic.R |only spant-1.15.0/spant/inst/CITATION |only spant-1.15.0/spant/inst/doc/spant-intro.html | 140 ++++----- spant-1.15.0/spant/inst/doc/spant-preprocessing.html | 4 spant-1.15.0/spant/man/acquire.Rd | 46 +-- spant-1.15.0/spant/man/add_noise.Rd | 46 +-- spant-1.15.0/spant/man/align.Rd | 2 spant-1.15.0/spant/man/append_coils.Rd | 38 +- spant-1.15.0/spant/man/append_dyns.Rd | 38 +- spant-1.15.0/spant/man/apply_axes.Rd | 60 ++-- spant-1.15.0/spant/man/apply_mrs.Rd | 44 +-- spant-1.15.0/spant/man/auto_phase.Rd | 50 +-- spant-1.15.0/spant/man/bbase.Rd | 46 +-- spant-1.15.0/spant/man/bc_constant.Rd | 40 +- spant-1.15.0/spant/man/calc_ed_from_lambda.Rd | 42 +- spant-1.15.0/spant/man/calc_peak_info_vec.Rd | 40 +- spant-1.15.0/spant/man/calc_spec_diff.Rd | 42 +- spant-1.15.0/spant/man/calc_spec_snr.Rd | 88 +++--- spant-1.15.0/spant/man/crop_td_pts.Rd | 42 +- spant-1.15.0/spant/man/ecc.Rd | 52 +-- spant-1.15.0/spant/man/elliptical_mask.Rd | 58 ++-- spant-1.15.0/spant/man/est_noise_sd.Rd | 46 +-- spant-1.15.0/spant/man/fit_amps.Rd | 58 ++-- spant-1.15.0/spant/man/fp_phase_correct.Rd | 44 +-- spant-1.15.0/spant/man/ft_dyn.Rd | 38 +- spant-1.15.0/spant/man/gausswin_2d.Rd | 62 ++-- spant-1.15.0/spant/man/get_1h_brain_basis_paras.Rd | 48 +-- spant-1.15.0/spant/man/get_1h_brain_basis_paras_v1.Rd | 48 +-- spant-1.15.0/spant/man/get_1h_brain_basis_paras_v2.Rd | 48 +-- spant-1.15.0/spant/man/get_2d_psf.Rd | 46 +-- spant-1.15.0/spant/man/get_head_dyns.Rd |only spant-1.15.0/spant/man/get_mrsi2d_seg.Rd | 48 +-- spant-1.15.0/spant/man/get_mrsi_voi.Rd | 46 +-- spant-1.15.0/spant/man/get_mrsi_voxel.Rd | 50 +-- spant-1.15.0/spant/man/get_mrsi_voxel_xy_psf.Rd | 50 +-- spant-1.15.0/spant/man/get_seg_ind.Rd | 42 +- spant-1.15.0/spant/man/get_tail_dyns.Rd |only spant-1.15.0/spant/man/get_voi_seg.Rd | 38 +- spant-1.15.0/spant/man/get_voi_seg_psf.Rd | 38 +- spant-1.15.0/spant/man/get_voxel.Rd | 54 +-- spant-1.15.0/spant/man/grid_shift_xy.Rd | 42 +- spant-1.15.0/spant/man/lb.Rd | 54 +-- spant-1.15.0/spant/man/mean_mrs_list.Rd | 34 +- spant-1.15.0/spant/man/mrs_data2basis.Rd | 42 +- spant-1.15.0/spant/man/mrs_data2vec.Rd | 54 +-- spant-1.15.0/spant/man/nifti_flip_lr.Rd | 42 +- spant-1.15.0/spant/man/peak_info.Rd | 72 ++--- spant-1.15.0/spant/man/plot_bc.Rd | 36 +- spant-1.15.0/spant/man/plot_slice_map.Rd | 94 +++--- spant-1.15.0/spant/man/re_weighting.Rd | 42 +- spant-1.15.0/spant/man/read_basis.Rd | 4 spant-1.15.0/spant/man/read_basis_ac.Rd |only spant-1.15.0/spant/man/read_lcm_coord.Rd | 36 +- spant-1.15.0/spant/man/read_mrs_tqn.Rd | 64 ++-- spant-1.15.0/spant/man/read_tqn_result.Rd | 48 +-- spant-1.15.0/spant/man/rectangular_mask.Rd | 58 ++-- spant-1.15.0/spant/man/rep_mrs.Rd | 54 +-- spant-1.15.0/spant/man/resample_img.Rd | 42 +- spant-1.15.0/spant/man/scale_mrs_amp.Rd | 40 +- spant-1.15.0/spant/man/scale_spec.Rd | 72 ++--- spant-1.15.0/spant/man/seq_cpmg_ideal.Rd | 50 +-- spant-1.15.0/spant/man/seq_mega_press_ideal.Rd | 84 ++--- spant-1.15.0/spant/man/seq_press_ideal.Rd | 50 +-- spant-1.15.0/spant/man/seq_pulse_acquire.Rd | 42 +- spant-1.15.0/spant/man/seq_pulse_acquire_31p.Rd | 42 +- spant-1.15.0/spant/man/seq_slaser_ideal.Rd | 54 +-- spant-1.15.0/spant/man/seq_spin_echo_ideal.Rd | 46 +-- spant-1.15.0/spant/man/seq_spin_echo_ideal_31p.Rd | 46 +-- spant-1.15.0/spant/man/seq_steam_ideal.Rd | 50 +-- spant-1.15.0/spant/man/set_lw.Rd | 42 +- spant-1.15.0/spant/man/set_mask_xy_mat.Rd | 44 +-- spant-1.15.0/spant/man/shift_basis.Rd | 40 +- spant-1.15.0/spant/man/sim_basis.Rd | 64 ++-- spant-1.15.0/spant/man/sim_basis_1h_brain.Rd | 70 ++-- spant-1.15.0/spant/man/sim_basis_1h_brain_press.Rd | 70 ++-- spant-1.15.0/spant/man/sim_basis_tqn.Rd | 66 ++-- spant-1.15.0/spant/man/sim_brain_1h.Rd | 82 ++--- spant-1.15.0/spant/man/sim_mol.Rd | 80 ++--- spant-1.15.0/spant/man/sim_zero.Rd | 50 +-- spant-1.15.0/spant/man/spec_op.Rd | 64 ++-- spant-1.15.0/spant/man/spin_sys.Rd | 42 +- spant-1.15.0/spant/man/spm_pve2categorical.Rd | 38 +- spant-1.15.0/spant/man/sub_mean_dyns.Rd | 34 +- spant-1.15.0/spant/man/sum_mrs.Rd | 44 +-- spant-1.15.0/spant/man/td_conv_filt.Rd | 42 +- spant-1.15.0/spant/man/varpro_3_para_opts.Rd | 100 +++---- spant-1.15.0/spant/man/varpro_basic_opts.Rd |only spant-1.15.0/spant/man/varpro_opts.Rd | 96 +++--- spant-1.15.0/spant/man/write_basis_tqn.Rd | 46 +-- spant-1.15.0/spant/man/zf.Rd | 52 +-- spant-1.15.0/spant/tests/testthat/abfit_res_coarse.rds |binary spant-1.15.0/spant/tests/testthat/abfit_res_default.rds |binary spant-1.15.0/spant/tests/testthat/abfit_res_fine.rds |binary spant-1.15.0/spant/tests/testthat/abfit_res_no_optim.rds |binary spant-1.15.0/spant/tests/testthat/abfit_sim_mrs_data.rds |binary spant-1.15.0/spant/tests/testthat/abfit_sim_res.rds |binary spant-1.15.0/spant/tests/testthat/test_qm_sim.R | 12 111 files changed, 2479 insertions(+), 2316 deletions(-)
Title: Datasets and Functions for 'Sampling: Design and Analysis, 3rd
Edition'
Description: Includes all the datasets of 'Sampling: Design and Analysis'
(3rd edition by Sharon Lohr) in R format and additional functions for
analyzing and graphing probability samples.
Author: Yan Lu [aut, cre],
Sharon Lohr [aut]
Maintainer: Yan Lu <yanlu@unm.edu>
Diff between SDAResources versions 0.1.0 dated 2021-05-17 and 0.1.1 dated 2021-10-22
DESCRIPTION | 11 + MD5 | 270 ++++++++++++++++++++++++++++++++++++++-------- NAMESPACE | 6 + R/Functions.R | 94 +++++++++++++--- R/agpop.R | 44 +++---- R/agpps.R | 87 +++++++++----- R/agsrs.R | 17 +- R/agstrat.R | 47 ++++---- R/algebra.R | 15 +- R/anthrop.R |only R/anthsrs.R | 16 +- R/anthuneq.R |only R/artifratio.R |only R/asafellow.R |only R/auditresult.R |only R/auditselect.R |only R/azcounties.R |only R/baseball.R |only R/books.R |only R/census1920.R |only R/census2010.R |only R/cherry.R |only R/classes.R | 13 +- R/classpps.R | 18 +-- R/classppsjp.R |only R/college.R | 131 ++++++++++++---------- R/collegerg.R | 176 ++++++++++++++++++++++++++++- R/collshr.R |only R/coots.R | 28 +++- R/counties.R |only R/crimes.R |only R/deadtrees.R | 13 +- R/divorce.R |only R/gini.R |only R/golfsrs.R |only R/gpa.R | 15 +- R/healthjournals.R |only R/htcdf.R |only R/htpop.R |only R/htsrs.R | 20 ++- R/htstrat.R | 10 + R/hunting.R |only R/impute.R | 31 +++-- R/integerwt.R |only R/intellonline.R |only R/intelltel.R |only R/intellwts.R |only R/ipums.R |only R/journal.R |only R/measles.R |only R/mysteries.R |only R/nhanes.R | 119 +++++++++++--------- R/nybight.R |only R/otters.R |only R/ozone.R |only R/pitcount.R |only R/profresp.R |only R/profrespacs.R |only R/radon.R |only R/rectlength.R |only R/rnt.R |only R/sample70.R |only R/santacruz.R | 19 ++- R/schools.R | 39 +++--- R/seals.R |only R/shapespop.R |only R/shorebirds.R |only R/sp500.R |only R/spanish.R |only R/srs30.R |only R/ssc.R |only R/statepop.R |only R/statepps.R |only R/swedishlcs.R |only R/syc.R | 166 +++++++++++++++++++++------- R/teachers.R |only R/teachmi.R |only R/teachnr.R |only R/uneqvar.R |only R/vietnam.R |only R/vius.R |only R/viusca.R |only R/winter.R |only R/wtshare.R |only data/anthrop.RData |only data/anthuneq.RData |only data/artifratio.RData |only data/asafellow.RData |only data/auditresult.RData |only data/auditselect.RData |only data/azcounties.RData |only data/baseball.RData |only data/books.RData |only data/census1920.RData |only data/census2010.RData |only data/cherry.RData |only data/classppsjp.RData |only data/collshr.RData |only data/counties.RData |only data/crimes.RData |only data/divorce.RData |only data/gini.RData |only data/golfsrs.RData |only data/healthjournals.RData |only data/htcdf.RData |only data/htpop.RData |only data/hunting.RData |only data/integerwt.RData |only data/intellonline.RData |only data/intelltel.RData |only data/intellwts.RData |only data/ipums.RData |only data/journal.RData |only data/measles.RData |only data/mysteries.RData |only data/nybight.RData |only data/otters.RData |only data/ozone.RData |only data/pitcount.RData |only data/profresp.RData |only data/profrespacs.RData |only data/radon.RData |only data/rectlength.RData |only data/rnt.RData |only data/sample70.RData |only data/seals.RData |only data/shapespop.RData |only data/shorebirds.RData |only data/sp500.RData |only data/spanish.RData |only data/srs30.RData |only data/ssc.RData |only data/statepop.RData |only data/statepps.RData |only data/swedishlcs.RData |only data/teachers.RData |only data/teachmi.RData |only data/teachnr.RData |only data/uneqvar.RData |only data/vietnam.RData |only data/vius.RData |only data/viusca.RData |only data/winter.RData |only data/wtshare.RData |only man/agpop.Rd | 36 +++--- man/agpps.Rd | 82 +++++++++---- man/agsrs.Rd | 8 - man/agstrat.Rd | 44 ++++--- man/algebra.Rd | 14 +- man/anthrop.Rd |only man/anthsrs.Rd | 14 +- man/anthuneq.Rd |only man/artifratio.Rd |only man/asafellow.Rd |only man/auditresult.Rd |only man/auditselect.Rd |only man/azcounties.Rd |only man/baseball.Rd |only man/books.Rd |only man/captureci.Rd |only man/census1920.Rd |only man/census2010.Rd |only man/cherry.Rd |only man/classes.Rd | 12 +- man/classpps.Rd | 16 +- man/classppsjp.Rd |only man/college.Rd | 130 ++++++++++++---------- man/collegerg.Rd | 175 ++++++++++++++++++++++++++++- man/collshr.Rd |only man/coots.Rd | 25 +++- man/counties.Rd |only man/crimes.Rd |only man/deadtrees.Rd | 10 + man/divorce.Rd |only man/emppmf.Rd |only man/gini.Rd |only man/golfsrs.Rd |only man/gpa.Rd | 13 +- man/healthjournals.Rd |only man/htcdf.Rd |only man/htpop.Rd |only man/htsrs.Rd | 18 ++- man/htstrat.Rd | 8 - man/hunting.Rd |only man/impute.Rd | 29 +++- man/integerwt.Rd |only man/intellonline.Rd |only man/intelltel.Rd |only man/intellwts.Rd |only man/intervals_ex40.Rd | 31 +++-- man/ipums.Rd |only man/journal.Rd |only man/measles.Rd |only man/mysteries.Rd |only man/nhanes.Rd | 103 ++++++++++------- man/nybight.Rd |only man/otters.Rd |only man/ozone.Rd |only man/pitcount.Rd |only man/profresp.Rd |only man/profrespacs.Rd |only man/radon.Rd |only man/rectlength.Rd |only man/rnt.Rd |only man/sample70.Rd |only man/santacruz.Rd | 17 ++ man/schools.Rd | 37 +++--- man/seals.Rd |only man/shapespop.Rd |only man/shorebirds.Rd |only man/sp500.Rd |only man/spanish.Rd |only man/srs30.Rd |only man/ssc.Rd |only man/statepop.Rd |only man/statepps.Rd |only man/swedishlcs.Rd |only man/syc.Rd | 166 ++++++++++++++++++++++------ man/teachers.Rd |only man/teachmi.Rd |only man/teachnr.Rd |only man/uneqvar.Rd |only man/vietnam.Rd |only man/vius.Rd |only man/viusca.Rd |only man/winter.Rd |only man/wtshare.Rd |only 227 files changed, 1724 insertions(+), 669 deletions(-)
Title: Density, Cumulative and Quantile Functions of Quadratic Forms
Description: The computation of quadratic form (QF) distributions is often not trivial and it requires numerical routines. The package contains functions aimed at evaluating the exact distribution of quadratic forms (QFs) and ratios of QFs. In particular, we propose to evaluate density, quantile and distribution functions of positive definite QFs and ratio of independent positive QFs by means of an algorithm based on the numerical inversion of Mellin transforms.
Author: Aldo Gardini [aut, cre],
Fedele Greco [aut],
Carlo Trivisano [aut]
Maintainer: Aldo Gardini <aldo.gardini2@unibo.it>
Diff between QF versions 0.0.4 dated 2021-02-18 and 0.0.6 dated 2021-10-22
QF-0.0.4/QF/cleanup |only QF-0.0.4/QF/configure |only QF-0.0.4/QF/configure.ac |only QF-0.0.4/QF/src/Makevars.in |only QF-0.0.6/QF/DESCRIPTION | 9 ++++----- QF-0.0.6/QF/MD5 | 25 ++++++++++++------------- QF-0.0.6/QF/R/Distributions_depratio.R | 7 +++++-- QF-0.0.6/QF/R/MellinQF.R | 4 ++++ QF-0.0.6/QF/R/MellinQF_ratio.R | 6 ++++++ QF-0.0.6/QF/man/pQF_depratio.Rd | 2 +- QF-0.0.6/QF/src/Makevars |only QF-0.0.6/QF/src/Makevars.ucrt |only QF-0.0.6/QF/src/Makevars.win | 17 +++++++++-------- QF-0.0.6/QF/src/RcppExports.cpp | 5 +++++ QF-0.0.6/QF/src/get_mellin_QF.cpp | 6 +++++- QF-0.0.6/QF/src/get_mellin_QF_ratio.cpp | 2 +- QF-0.0.6/QF/tools |only 17 files changed, 52 insertions(+), 31 deletions(-)
Title: Probabilistic Supervised Learning for 'mlr3'
Description: Provides extensions for probabilistic supervised learning for
'mlr3'. This includes extending the regression task to probabilistic
and interval regression, adding a survival task, and other specialized
models, predictions, and measures.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>),
Franz Kiraly [aut],
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>),
Nurul Ain Toha [ctb],
Andreas Bender [ctb] (<https://orcid.org/0000-0001-5628-8611>)
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>
Diff between mlr3proba versions 0.4.1 dated 2021-09-07 and 0.4.2 dated 2021-10-22
DESCRIPTION | 16 MD5 | 164 ++++----- NEWS.md | 4 R/LearnerDensHistogram.R | 2 R/LearnerDensKDE.R | 6 R/LearnerSurv.R | 4 R/LearnerSurvCoxPH.R | 6 R/LearnerSurvKaplan.R | 2 R/MeasureSurv.R | 2 R/MeasureSurvAUC.R | 2 R/MeasureSurvCalibrationAlpha.R | 4 R/MeasureSurvCindex.R | 26 - R/MeasureSurvDCalibration.R | 6 R/MeasureSurvGraf.R | 6 R/MeasureSurvIntLogloss.R | 6 R/MeasureSurvIntegrated.R | 4 R/MeasureSurvLogloss.R | 2 R/MeasureSurvSchmid.R | 6 R/PipeOpCrankCompositor.R | 10 R/PipeOpDistrCompositor.R | 16 R/PipeOpPredRegrSurv.R | 50 +- R/PipeOpPredSurvRegr.R | 25 - R/PipeOpPredTransformer.R | 13 R/PipeOpProbregrCompositor.R | 54 +-- R/PipeOpSurvAvg.R | 35 +- R/PipeOpTaskRegrSurv.R | 37 +- R/PipeOpTaskSurvRegr.R | 156 ++++----- R/PipeOpTaskTransformer.R | 15 R/PipeOpTransformer.R | 7 R/PredictionDataSurv.R | 11 R/PredictionDens.R | 2 R/PredictionSurv.R | 8 R/TaskDens_X.R | 4 R/TaskGeneratorSimdens.R | 2 R/TaskGeneratorSimsurv.R | 8 R/TaskSurv.R | 1 R/TaskSurv_X.R | 8 R/bibentries.R | 110 +++--- R/cindex.R | 6 R/helpers.R | 2 R/histogram.R | 4 R/integrated_scores.R | 18 - R/pecs.R | 80 ++-- R/pipelines.R | 255 +++++++-------- R/surv_measures.R | 4 R/surv_return.R | 6 R/zzz.R | 16 README.md | 1 build/partial.rdb |binary man/MeasureSurvIntegrated.Rd | 2 man/TaskSurv.Rd | 1 man/mlr3proba-package.Rd | 8 man/mlr_graphs_crankcompositor.Rd | 20 - man/mlr_graphs_distrcompositor.Rd | 24 - man/mlr_graphs_probregrcompositor.Rd | 40 +- man/mlr_graphs_survaverager.Rd | 22 - man/mlr_graphs_survbagging.Rd | 22 - man/mlr_graphs_survtoregr.Rd | 66 +-- man/mlr_measures_dens.logloss.Rd | 2 man/mlr_measures_surv.intlogloss.Rd | 2 man/mlr_measures_surv.logloss.Rd | 7 man/mlr_pipeops_compose_distr.Rd | 14 man/mlr_pipeops_compose_probregr.Rd | 34 +- man/mlr_pipeops_survavg.Rd | 14 man/mlr_pipeops_trafopred_regrsurv.Rd | 34 +- man/mlr_pipeops_trafopred_survregr.Rd | 18 - man/mlr_pipeops_trafotask_regrsurv.Rd | 28 - man/mlr_pipeops_trafotask_survregr.Rd | 94 ++--- man/mlr_task_generators_simsurv.Rd | 6 man/pecs.Rd | 38 +- tests/testthat/helper.R | 6 tests/testthat/helper_pipeops.R | 15 tests/testthat/test_PredictionSurv.R | 2 tests/testthat/test_TaskSurv.R | 6 tests/testthat/test_mlr_learners_surv_coxph.R | 2 tests/testthat/test_mlr_measures.R | 22 - tests/testthat/test_mlr_measures_MeasureSurvIntegrated.R | 6 tests/testthat/test_pipelines.R | 8 tests/testthat/test_pipeop_crankcompositor.R | 26 - tests/testthat/test_pipeop_distrcompositor.R | 6 tests/testthat/test_pipeop_probregrcompositor.R | 4 tests/testthat/test_pipeop_survavg.R | 37 +- tests/testthat/test_register.R | 2 83 files changed, 944 insertions(+), 926 deletions(-)
Title: A 'ggplot2' Implement of Venn Diagram
Description: Easy-to-use functions to generate 2-7 sets Venn plot in publication quality.
'ggVennDiagram' plot Venn using well-defined geometry dataset and 'ggplot2'. The shapes of 2-4 sets
Venn use circles and ellipses, while the shapes of 4-7 sets Venn use irregular polygons (4 has both forms), which
are developed and imported from another package 'venn', authored by Adrian Dusa. We provided internal functions to
integrate shape data with user provided sets data, and calculated the geometry of every regions/intersections
of them, then separately plot Venn in three components: set edges, set labels, and regions.
From version 1.0, it is possible to customize these components as you demand in ordinary 'ggplot2' grammar.
Author: Chun-Hui Gao [aut, cre] (<https://orcid.org/0000-0002-1445-7939>),
Guangchuang Yu [ctb] (<https://orcid.org/0000-0002-6485-8781>),
Adrian Dusa [ctb]
Maintainer: Chun-Hui Gao <gaospecial@gmail.com>
Diff between ggVennDiagram versions 1.1.4 dated 2021-07-07 and 1.2.0 dated 2021-10-22
DESCRIPTION | 6 +-- MD5 | 22 ++++++------ NEWS.md | 6 +++ README.md | 18 ++++++++-- inst/doc/fully-customed.R | 26 ++++++++++++++ inst/doc/fully-customed.Rmd | 33 ++++++++++++++++++ inst/doc/fully-customed.html | 40 +++++++++++++++++++++++ inst/doc/using-ggVennDiagram.html | 6 +-- inst/doc/venn-plot-with-more-than-four-sets.Rmd | 2 - inst/doc/venn-plot-with-more-than-four-sets.html | 2 - vignettes/fully-customed.Rmd | 33 ++++++++++++++++++ vignettes/venn-plot-with-more-than-four-sets.Rmd | 2 - 12 files changed, 173 insertions(+), 23 deletions(-)
Title: Analysis of Geostatistical Data using Bayes and Empirical Bayes
Methods
Description: Functions to fit geostatistical data. The data can be
continuous, binary or count data and the models implemented are
flexible. Conjugate priors are assumed on some parameters while
inference on the other parameters can be done through a full
Bayesian analysis of by empirical Bayes methods.
Author: Evangelos Evangelou <e.evangelou@maths.bath.ac.uk>, Vivekananda
Roy <vroy@iastate.edu>
Maintainer: Evangelos Evangelou <e.evangelou@maths.bath.ac.uk>
Diff between geoBayes versions 0.6.3 dated 2019-12-02 and 0.7.0 dated 2021-10-22
DESCRIPTION | 12 +++--- MD5 | 74 +++++++++++++++++++++--------------------- NAMESPACE | 3 + NEWS | 2 + R/bf.R | 10 +++-- R/bfse.R | 6 ++- R/calcbf.R | 20 ++++++----- R/geobayes-correlation.R | 1 R/mcsp2.R | 56 ++++++++++++++++++++++++++------ R/mcsp_mala.R | 76 ++++++++++++++++++++++++++++++++------------ R/seeb.R | 3 + R/simulate.R | 39 +++++++++++++++++----- R/skelpnts.R | 50 ++++++++++++++++++++++------ R/sploglik.R | 20 +++++++---- man/alik_inla.Rd | 3 + man/alik_optim.Rd | 3 + man/geoBayes_correlation.Rd | 4 +- man/geoBayes_models.Rd | 4 +- man/mcsglmm.Rd | 3 + man/mcsglmm_mala.Rd | 3 + man/mcstrga.Rd | 3 + man/mcstrga_mala.Rd | 3 + man/rhizoctonia.Rd | 4 +- man/rsglmm.Rd | 5 ++ src/Makevars | 2 - src/betaprior.f90 | 16 +++++---- src/bfse.f90 | 54 ++++++++++++++++--------------- src/bfsp2.f90 | 26 +++++++-------- src/calcb2.f90 | 62 +++++++++++++++++------------------ src/calcbd.f90 | 28 +++++++++------- src/llik.f90 | 48 +++++++++++++++------------ src/llikderiv.f90 | 6 +-- src/llikmc.f90 | 24 ++++++------- src/mcmcfcns.f90 | 20 ++++++----- src/mcsp2.f90 | 56 +++++++++++++++++--------------- src/mcsp_mala.f90 | 41 ++++++++++++----------- src/seeb.f90 | 40 +++++++++++------------ src/skelpnts.f90 | 30 ++++++++--------- 38 files changed, 525 insertions(+), 335 deletions(-)
Title: UCA Rcmdr Plug-in
Description: Some extensions to Rcmdr (R Commander), randomness test,
variance test for one normal sample and predictions using active model,
made by R-UCA project and used in teaching statistics at University of Cadiz (UCA).
Author: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Diff between RcmdrPlugin.UCA versions 4.4-3 dated 2021-04-02 and 4.5-1 dated 2021-10-22
ChangeLog | 3 DESCRIPTION | 12 MD5 | 34 - NAMESPACE | 19 R/qualitycontrol.R | 601 +++++++++++++++------------- build/vignette.rds |binary inst/doc/additions.html | 4 inst/doc/adiciones.html | 4 inst/etc/menus.txt | 25 - inst/po/es/LC_MESSAGES/R-RcmdrPlugin.UCA.mo |binary man/RcmdrPlugin.UCA-internal.Rd | 16 man/RcmdrPlugin.UCA-package.Rd | 4 man/RcmdrPlugin.UCA.es-package.Rd | 4 man/qccMenu.Rd |only man/qccMenu.es.Rd |only po/R-RcmdrPlugin.UCA-es.mo |binary po/R-RcmdrPlugin.UCA-es.po | 446 ++++++++++++++------ po/R-RcmdrPlugin.UCA.mo |binary po/R-RcmdrPlugin.UCA.pot | 366 ++++++++++++----- 19 files changed, 972 insertions(+), 566 deletions(-)
More information about RcmdrPlugin.UCA at CRAN
Permanent link
Title: Multivariate Difference Between Two Groups
Description: Estimation of multivariate differences between two groups (e.g., multivariate sex differences) with regularized regression methods and predictive approach. See Lönnqvist & Ilmarinen (2021) <doi:10.1007/s11109-021-09681-2> and Ilmarinen et al. (2021) <doi:10.31234/osf.io/j59bs>.
Author: Ville-Juhani Ilmarinen [aut, cre]
(<https://orcid.org/0000-0001-9493-379X>)
Maintainer: Ville-Juhani Ilmarinen <vj.ilmarinen@gmail.com>
Diff between multid versions 0.1.0 dated 2021-09-20 and 0.2.0 dated 2021-10-22
DESCRIPTION | 11 MD5 | 32 +- NAMESPACE | 1 NEWS.md | 10 R/D_regularized.R | 26 +- R/D_regularized_fold.R | 28 +- R/D_regularized_fold_out.R | 109 ++++++++- R/D_regularized_out.R | 83 ++++++- R/colwise_pool.R | 12 - R/d_pooled_sd.R | 17 + R/pcc.R |only README.md | 469 ++++++++++++++++++++++++++++++++++-------- man/D_regularized.Rd | 17 + man/D_regularized_fold_out.Rd | 18 + man/D_regularized_out.Rd | 18 + man/d_pooled_sd.Rd | 13 - man/figures |only man/pcc.Rd |only 18 files changed, 717 insertions(+), 147 deletions(-)
Title: Open Source Geometry Engine ('GEOS') R API
Description: Provides an R API to the Open Source Geometry Engine
('GEOS') library (<https://trac.osgeo.org/geos/>) and a vector format
with which to efficiently store 'GEOS' geometries. High-performance functions
to extract information from, calculate relationships between, and
transform geometries are provided. Finally, facilities to import
and export geometry vectors to other spatial formats are provided.
Author: Dewey Dunnington [aut, cre] (<https://orcid.org/0000-0002-9415-4582>),
Edzer Pebesma [aut] (<https://orcid.org/0000-0001-8049-7069>)
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between geos versions 0.1.1 dated 2021-05-18 and 0.1.2 dated 2021-10-22
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ README.md | 18 ++++++++---------- man/figures/README-ex-plot-1.png |binary man/geos-package.Rd | 7 +------ tests/testthat/Rplots.pdf |binary tests/testthat/test-geos-binary-atomic.R | 8 +++++++- tests/testthat/test-geos-unary-geometry.R | 16 ++++++++++------ 9 files changed, 42 insertions(+), 35 deletions(-)
Title: Access, Retrieve, and Work with Canadian Census Data and
Geography
Description: Integrated, convenient, and uniform access to Canadian
Census data and geography retrieved using the 'CensusMapper' API. This package produces analysis-ready
tidy data frames and spatial data in multiple formats, as well as convenience functions
for working with Census variables, variable hierarchies, and region selection. API
keys are freely available with free registration at <https://censusmapper.ca/api>.
Census data and boundary geometries are reproduced and distributed on an "as
is" basis with the permission of Statistics Canada (Statistics Canada 2001; 2006;
2011; 2016).
Author: Jens von Bergmann [aut] (API creator and maintainer),
Dmitry Shkolnik [aut, cre] (Package maintainer, responsible for
correspondence),
Aaron Jacobs [aut]
Maintainer: Dmitry Shkolnik <shkolnikd@gmail.com>
Diff between cancensus versions 0.4.6 dated 2021-10-21 and 0.4.7 dated 2021-10-22
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/cancensus.R | 9 ++++++++- R/census_regions.R | 4 ++++ inst/doc/Making_maps_with_cancensus.html | 8 ++++---- man/dataset_attribution.Rd | 3 +++ man/label_vectors.Rd | 1 + man/list_census_datasets.Rd | 3 +++ man/list_census_regions.Rd | 4 ++++ 9 files changed, 38 insertions(+), 16 deletions(-)
Title: See a Forest for the Trees
Description: Get insight into a forest of classification trees, by calculating similarities between the trees, and subsequently clustering them. Each cluster is represented by it's most central cluster member. The package implements the methodology described in Sies & Van Mechelen (2020) <doi:10.1007/s00357-019-09350-4>.
Author: Aniek Sies [aut, cre],
Iven Van Mechelen [ths]
Maintainer: Aniek Sies <aniek.sies@kuleuven.be>
Diff between C443 versions 3.2.1 dated 2021-06-27 and 3.2.2 dated 2021-10-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/clusterforest.R | 10 +++++----- 3 files changed, 11 insertions(+), 11 deletions(-)
Title: Non-Parametric Bayesian Analyses of Animal Movement
Description: Methods for assessing animal movement from telemetry and biologging
data using non-parametric Bayesian methods. This includes features for pre-
processing and analysis of data, as well as the visualization of results
from the models. This framework does not rely on standard parametric density
functions, which provides flexibility during model fitting. Further details
regarding part of this framework can be found in Cullen et al. (2021) <doi:10.1101/2020.11.05.369702>.
Author: Joshua Cullen [aut, cre, cph] (<https://orcid.org/0000-0002-6935-9340>),
Denis Valle [aut, cph]
Maintainer: Joshua Cullen <joshcullen10@gmail.com>
Diff between bayesmove versions 0.2.0 dated 2021-04-26 and 0.2.1 dated 2021-10-22
DESCRIPTION | 17 - MD5 | 31 +- NAMESPACE | 1 NEWS.md | 6 R/RcppExports.R | 13 + R/segmentation_gibbs_functions.R | 32 -- R/segmentation_gibbs_sampler.R | 30 +- R/segmentation_helper_functions.R | 47 ++- R/shinyapp.R | 477 +++++++++++++++++++++----------------- README.md | 49 ++- inst/CITATION | 6 inst/WORDLIST | 4 man/shiny_tracks.Rd | 11 man/summarize1.Rd |only man/traceplot.Rd | 39 ++- src/LDA_aux1.cpp | 26 ++ src/RcppExports.cpp | 16 + 17 files changed, 487 insertions(+), 318 deletions(-)
Title: Partition/Decomposition of Breeding Values by Paths of
Information
Description: A software that implements a method for partitioning genetic trends to
quantify the sources of genetic gain in breeding programmes.
The partitioning method is described in Garcia-Cortes et al.
(2008) <doi:10.1017/S175173110800205X>. The package includes the
main function AlphaPart for partitioning breeding values and auxiliary
functions for manipulating data and summarizing, visualizing, and saving
results.
Author: Gregor Gorjanc [aut, cre] (<https://orcid.org/0000-0001-8008-2787>),
Jana Obsteter [aut] (<https://orcid.org/0000-0003-1511-3916>),
Thiago de Paula Oliveira [aut]
(<https://orcid.org/0000-0002-4555-2584>)
Maintainer: Gregor Gorjanc <highlander.research.lab@gmail.com>
Diff between AlphaPart versions 0.8.3 dated 2021-09-28 and 0.8.4 dated 2021-10-22
AlphaPart-0.8.3/AlphaPart/tests |only AlphaPart-0.8.4/AlphaPart/DESCRIPTION | 12 ++++---- AlphaPart-0.8.4/AlphaPart/MD5 | 19 ++----------- AlphaPart-0.8.4/AlphaPart/build/partial.rdb |binary AlphaPart-0.8.4/AlphaPart/inst/doc/alphapart-vignette.html | 4 +- 5 files changed, 11 insertions(+), 24 deletions(-)
Title: Header-Only C++ Mathematical Optimization Library for
'Armadillo'
Description: 'Ensmallen' is a templated C++ mathematical optimization library
(by the 'MLPACK' team) that provides a simple set of abstractions for writing an
objective function to optimize. Provided within are various standard and
cutting-edge optimizers that include full-batch gradient descent techniques,
small-batch techniques, gradient-free optimizers, and constrained optimization.
The 'RcppEnsmallen' package includes the header files from the 'Ensmallen' library
and pairs the appropriate header files from 'armadillo' through the
'RcppArmadillo' package. Therefore, users do not need to install 'Ensmallen' nor
'Armadillo' to use 'RcppEnsmallen'. Note that 'Ensmallen' is licensed under
3-Clause BSD, 'Armadillo' starting from 7.800.0 is licensed under Apache License 2,
'RcppArmadillo' (the 'Rcpp' bindings/bridge to 'Armadillo') is licensed under
the GNU GPL version 2 or later. Thus, 'RcppEnsmallen' is also licensed under
similar terms. Note that 'Ensmallen' requires a compiler that supports
'C++11' and 'Armadillo' 9.800 or later.
Author: James Joseph Balamuta [aut, cre, cph]
(<https://orcid.org/0000-0003-2826-8458>),
Dirk Eddelbuettel [aut, cph] (<https://orcid.org/0000-0001-6419-907X>)
Maintainer: James Joseph Balamuta <balamut2@illinois.edu>
Diff between RcppEnsmallen versions 0.2.17.0.1 dated 2021-07-06 and 0.2.18.0.1 dated 2021-10-22
ChangeLog | 17 +++ DESCRIPTION | 10 - MD5 | 26 ++-- NEWS.md | 18 +++ build/vignette.rds |binary inst/doc/using-rcppensmallen.Rmd | 8 - inst/doc/using-rcppensmallen.html | 28 ++--- inst/include/ensmallen.hpp | 2 inst/include/ensmallen_bits/callbacks/early_stop_at_min_loss.hpp | 4 inst/include/ensmallen_bits/callbacks/grad_clip_by_norm.hpp |only inst/include/ensmallen_bits/callbacks/grad_clip_by_value.hpp |only inst/include/ensmallen_bits/callbacks/traits.hpp | 56 ++++++++-- inst/include/ensmallen_bits/ens_version.hpp | 8 - src/RcppExports.cpp | 5 vignettes/using-rcppensmallen.Rmd | 8 - 15 files changed, 139 insertions(+), 51 deletions(-)
Title: Growth Charts via Smooth Regression Quantiles with Automatic
Smoothness Estimation and Additive Terms
Description: Fits non-crossing regression quantiles as a function of linear covariates and multiple smooth terms, including varying coefficients, via B-splines with L1-norm difference penalties.
The smoothing parameters are estimated as part of the model fitting, see Muggeo and others (2021) <doi:10.1177/1471082X20929802>. Monotonicity and concavity
constraints on the fitted curves are allowed, see Muggeo and others (2013) <doi:10.1007/s10651-012-0232-1> and also <doi:10.13140/RG.2.2.12924.85122> for some code examples.
Author: Vito M. R. Muggeo [aut, cre] (<https://orcid.org/0000-0002-3386-4054>)
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between quantregGrowth versions 1.3-0 dated 2021-06-11 and 1.3-1 dated 2021-10-22
DESCRIPTION | 13 ++-- MD5 | 42 +++++++-------- NEWS | 20 +++++-- R/gcrq.r | 63 +++++++++++++++------- R/logLik.gcrq.R | 11 ++- R/ncross.rq.fitXB.r | 35 ++++++++---- R/plot.gcrq.R | 8 ++ R/predict.gcrq.R | 44 +++++++++++---- R/print.gcrq.R | 3 - R/ps.R | 16 ++--- R/summary.gcrq.R | 117 +++++++++++++++++++++--------------------- build/vignette.rds |binary inst/doc/quantregGrowth.R | 2 inst/doc/quantregGrowth.Rmd | 21 +++---- inst/doc/quantregGrowth.html | 23 ++++---- man/charts.Rd | 4 - man/gcrq.Rd | 21 ++++--- man/logLik.gcrq.Rd | 8 ++ man/plot.gcrq.Rd | 4 - man/ps.Rd | 20 +++---- man/quantregGrowth-package.Rd | 10 +-- vignettes/quantregGrowth.Rmd | 21 +++---- 22 files changed, 299 insertions(+), 207 deletions(-)
More information about quantregGrowth at CRAN
Permanent link
Title: A Framework for Comparing the Performance of MCMC Samplers
Description: A framework for running sets of MCMC samplers on sets of distributions with a variety of tuning parameters, along with plotting functions to visualize the results of those simulations.
Author: Madeleine Thompson, except dchud.f and dchdd.f, which were written by G. W. Stewart.
Maintainer: Madeleine Thompson <madeleineth@gmail.com>
Diff between SamplerCompare versions 1.3.1 dated 2021-09-28 and 1.3.2 dated 2021-10-22
DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++-------- build/partial.rdb |only build/vignette.rds |binary inst/CITATION | 6 +++--- inst/doc/glue.pdf |binary inst/doc/sc-intro.pdf |binary man/compare.samplers.Rd | 2 +- man/comparison.plot.Rd | 2 +- man/simulation.result.Rd | 2 +- 10 files changed, 19 insertions(+), 18 deletions(-)
More information about SamplerCompare at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-14 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-24 0.1.1
2016-11-30 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-07-30 0.13.1
Title: R/Package Version Check
Description: Check latest release version of R and R package (both in 'CRAN', 'Bioconductor' or 'Github').
Author: Guangchuang Yu [aut, cre],
Chun-hui Gao [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between rvcheck versions 0.2.0 dated 2021-09-14 and 0.2.1 dated 2021-10-22
DESCRIPTION | 9 +++++---- MD5 | 6 ++++-- NAMESPACE | 7 +++++++ R/reexports.R |only man/reexports.Rd |only 5 files changed, 16 insertions(+), 6 deletions(-)
Title: R Interface to the 'PostgreSQL' Database System
Description: Database interface and 'PostgreSQL' driver for 'R'.
This package provides a Database Interface 'DBI' compliant
driver for 'R' to access 'PostgreSQL' database systems.
In order to build and install this package from source, 'PostgreSQL'
itself must be present your system to provide 'PostgreSQL' functionality
via its libraries and header files. These files are provided as
'postgresql-devel' package under some Linux distributions.
On 'macOS' and 'Microsoft Windows' system the attached 'libpq' library source will be used.
Author: Joe Conway, Dirk Eddelbuettel, Tomoaki Nishiyama, Sameer Kumar Prayaga (during 2008), Neil Tiffin
Maintainer: Tomoaki Nishiyama <tomoakin@staff.kanazawa-u.ac.jp>
Diff between RPostgreSQL versions 0.7-2 dated 2021-10-06 and 0.7-3 dated 2021-10-22
DESCRIPTION | 8 +++--- MD5 | 6 ++-- configure | 72 +++++++++-------------------------------------------------- configure.ac | 17 +++++++++++-- 4 files changed, 32 insertions(+), 71 deletions(-)
Title: Magnetic Resonance Binning, Integration and Normalization
Description: Nuclear Magnetic Resonance is widely used in Life Science
research. The package (<doi:10.1021/acs.jproteome.0c00684>) converts 1D
or 2D data into a matrix of values suitable for further data analysis and
performs basic processing steps in a reproducible way. Negative values, a
common issue in such data, are replaced by positive values. All used
parameters are stored in a readable text file and can be restored from that
file to enable exact reproduction of the data at a later time.
Author: Matthias Klein [aut, cre] (<https://orcid.org/0000-0001-7455-5381>)
Maintainer: Matthias Klein <klein.663@osu.edu>
Diff between mrbin versions 1.6.0 dated 2021-08-23 and 1.6.1 dated 2021-10-22
DESCRIPTION | 6 +- MD5 | 10 ++-- NEWS.md | 6 ++ R/mrbin.R | 119 ++++++++++++++++++++++++++++++++++++----------------- inst/doc/mrbin.pdf |binary man/addToPlot.Rd | 5 +- 6 files changed, 99 insertions(+), 47 deletions(-)
Title: Miscellaneous, Analytic R Kernels
Description: Miscellaneous functions and wrappers for development in other
packages created, maintained by Jordan Mark Barbone.
Author: Jordan Mark Barbone [aut, cph, cre] (0000-0001-9788-3628)
Maintainer: Jordan Mark Barbone <jmbarbone@gmail.com>
Diff between mark versions 0.3.0 dated 2021-09-18 and 0.4.0 dated 2021-10-22
DESCRIPTION | 8 - MD5 | 153 +++++++++++++++++++--------------- NAMESPACE | 8 + NEWS.md | 31 ++++++ R/base-conversion.R | 2 R/counts.R | 8 - R/dataframes.R | 29 +++++- R/description.R | 29 ++++-- R/environments.R | 40 +++----- R/fact.R | 24 +++-- R/fct_expand_seq.R | 2 R/flip.R | 3 R/handlers.R | 3 R/import.R | 2 R/insert.R |only R/labels.R | 26 ++--- R/lines-of-code.R | 6 - R/logic.R | 33 +++++-- R/match.R | 2 R/na-assignment.R | 4 R/nas.R | 33 ++++++- R/note.R | 13 -- R/percent_rank.R |only R/plot.R | 6 - R/pseudo-id.R | 15 ++- R/strings.R | 16 --- R/struct.R | 25 +++-- R/system-file.R | 2 R/unlist.R | 5 - R/utils.R | 65 +++++--------- README.md | 2 man/insert.Rd |only man/list2df.Rd | 7 + man/logic_ext.Rd | 12 ++ man/ls_ext.Rd | 9 +- man/omit_na.Rd |only man/percentile_rank.Rd |only man/pseudo_id.Rd | 12 +- man/quick_df.Rd | 13 ++ man/struct.Rd | 25 +++-- tests/testthat/Rplots.pdf |only tests/testthat/_snaps/handlers.md |only tests/testthat/_snaps/note.md | 33 ++++++- tests/testthat/files |only tests/testthat/scripts/lines |only tests/testthat/test-apply.R | 25 +++++ tests/testthat/test-array.R | 5 + tests/testthat/test-base-conversion.R | 23 +++++ tests/testthat/test-between-more.R | 2 tests/testthat/test-boolean.R | 74 ++++++++++++++++ tests/testthat/test-char2fact.R | 4 tests/testthat/test-clipboard.R | 8 + tests/testthat/test-dataframes.R | 17 +++ tests/testthat/test-dates.R | 13 ++ tests/testthat/test-depth.R | 1 tests/testthat/test-description.R |only tests/testthat/test-detail.R |only tests/testthat/test-diff-time.R | 13 ++ tests/testthat/test-environments.R |only tests/testthat/test-expand.R | 15 ++- tests/testthat/test-fact.R | 36 +++++++- tests/testthat/test-fct-expand-seq.R | 7 + tests/testthat/test-flip.R | 15 +++ tests/testthat/test-funs.R | 5 + tests/testthat/test-handlers.R | 16 +++ tests/testthat/test-identical.R |only tests/testthat/test-import.R |only tests/testthat/test-insert.R |only tests/testthat/test-labels.R | 23 +++++ tests/testthat/test-lines-of-code.R |only tests/testthat/test-logic.R | 13 ++ tests/testthat/test-map.R |only tests/testthat/test-match-arg.R | 17 +++ tests/testthat/test-match.R |only tests/testthat/test-na-assignments.R | 18 ++++ tests/testthat/test-namespace.R |only tests/testthat/test-nas.R | 17 +++ tests/testthat/test-note.R | 33 ++++--- tests/testthat/test-options.R |only tests/testthat/test-paste.R | 10 +- tests/testthat/test-percentile_rank.R |only tests/testthat/test-plot.R |only tests/testthat/test-round-by.R | 16 ++- tests/testthat/test-stats.R | 2 tests/testthat/test-struct.R | 11 ++ tests/testthat/test-system-file.R |only tests/testthat/test-time-report.R |only tests/testthat/test-unlist.R | 11 ++ tests/testthat/test-utils.R | 29 ++++++ 89 files changed, 877 insertions(+), 308 deletions(-)
Title: Grouped Date Classes
Description: Provides a coherent interface and implementation for creating
grouped date classes. This package is part of the RECON
(<https://www.repidemicsconsortium.org/>) toolkit for outbreak analysis.
Author: Tim Taylor [aut, cre] (<https://orcid.org/0000-0002-8587-7113>)
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between grates versions 0.2.0 dated 2021-05-28 and 0.3.0 dated 2021-10-21
DESCRIPTION | 8 MD5 | 44 +-- NAMESPACE | 5 NEWS.md | 10 R/int_period.R | 6 R/month.R | 6 R/period.R | 16 - R/seq.R |only R/year.R | 1 R/yearweek.R | 2 README.md | 23 - build/vignette.rds |binary inst/doc/introduction.html | 576 ++++++++++++----------------------------- man/as_month.Rd | 17 - man/as_period.Rd | 17 - man/as_quarter.Rd | 17 - man/as_year.Rd | 17 - man/as_yearweek.Rd | 17 - tests/testthat/test-month.R | 4 tests/testthat/test-period.R | 4 tests/testthat/test-quarter.R | 4 tests/testthat/test-seq.R |only tests/testthat/test-year.R | 4 tests/testthat/test-yearweek.R | 6 24 files changed, 316 insertions(+), 488 deletions(-)
Title: Create and Manipulate BioCompute Objects
Description: Tools to create, validate, and export BioCompute Objects
described in King et al. (2019) <doi:10.17605/osf.io/h59uh>.
Users can encode information in data frames, and compose
BioCompute Objects from the domains defined by the standard.
A checksum validator and a JSON schema validator are provided.
This package also supports exporting BioCompute Objects as JSON,
PDF, HTML, or 'Word' documents, and exporting to cloud-based platforms.
Author: Jeffrey Grover [aut, cre] (<https://orcid.org/0000-0001-6246-1767>),
Soner Koc [aut] (<https://orcid.org/0000-0002-0772-6600>),
Nan Xiao [aut] (<https://orcid.org/0000-0002-0250-5673>),
Dennis Dean [aut] (<https://orcid.org/0000-0002-7621-9717>),
Seven Bridges Genomics [cph, fnd]
Maintainer: Jeffrey Grover <jeffrey.grover@sevenbridges.com>
Diff between biocompute versions 1.0.6 dated 2021-09-29 and 1.1.0 dated 2021-10-21
biocompute-1.0.6/biocompute/inst/bco/BCO_Example_CNVs.json |only biocompute-1.1.0/biocompute/DESCRIPTION | 6 biocompute-1.1.0/biocompute/MD5 | 109 ++- biocompute-1.1.0/biocompute/NAMESPACE | 29 biocompute-1.1.0/biocompute/NEWS.md | 9 biocompute-1.1.0/biocompute/R/compose-description.R | 14 biocompute-1.1.0/biocompute/R/compose-error.R | 10 biocompute-1.1.0/biocompute/R/compose-execution.R | 12 biocompute-1.1.0/biocompute/R/compose-extension-fhir.R | 8 biocompute-1.1.0/biocompute/R/compose-extension-scm.R | 8 biocompute-1.1.0/biocompute/R/compose-extension.R | 8 biocompute-1.1.0/biocompute/R/compose-io.R | 8 biocompute-1.1.0/biocompute/R/compose-parametric.R | 10 biocompute-1.1.0/biocompute/R/compose-provenance.R | 8 biocompute-1.1.0/biocompute/R/compose-top-level-fields.R | 26 biocompute-1.1.0/biocompute/R/compose-usability.R | 10 biocompute-1.1.0/biocompute/R/compose.R | 14 biocompute-1.1.0/biocompute/R/export-docs.R | 6 biocompute-1.1.0/biocompute/R/export-sevenbridges.R | 2 biocompute-1.1.0/biocompute/R/read-bco.R |only biocompute-1.1.0/biocompute/R/utils-compose.R | 2 biocompute-1.1.0/biocompute/R/validate-checksum.R | 16 biocompute-1.1.0/biocompute/R/validate-schema.R | 42 - biocompute-1.1.0/biocompute/R/version.R | 4 biocompute-1.1.0/biocompute/README.md | 4 biocompute-1.1.0/biocompute/inst/bco/HCV1a.json | 303 +++++----- biocompute-1.1.0/biocompute/inst/bco/HIVE_metagenomics.json | 27 biocompute-1.1.0/biocompute/inst/bco/README | 2 biocompute-1.1.0/biocompute/inst/bco/UVP.json | 25 biocompute-1.1.0/biocompute/inst/bco/glycosylation-sites-UniCarbKB.json | 46 - biocompute-1.1.0/biocompute/inst/doc/case-study.html | 28 biocompute-1.1.0/biocompute/inst/doc/intro.html | 61 -- biocompute-1.1.0/biocompute/inst/schemas/1.4.2 |only biocompute-1.1.0/biocompute/man/compose.Rd | 10 biocompute-1.1.0/biocompute/man/compose_description.Rd | 16 biocompute-1.1.0/biocompute/man/compose_error.Rd | 10 biocompute-1.1.0/biocompute/man/compose_execution.Rd | 12 biocompute-1.1.0/biocompute/man/compose_extension.Rd | 10 biocompute-1.1.0/biocompute/man/compose_fhir.Rd | 10 biocompute-1.1.0/biocompute/man/compose_io.Rd | 8 biocompute-1.1.0/biocompute/man/compose_parametric.Rd | 10 biocompute-1.1.0/biocompute/man/compose_provenance.Rd | 10 biocompute-1.1.0/biocompute/man/compose_scm.Rd | 10 biocompute-1.1.0/biocompute/man/compose_tlf.Rd | 18 biocompute-1.1.0/biocompute/man/compose_usability.Rd | 10 biocompute-1.1.0/biocompute/man/export_html.Rd | 2 biocompute-1.1.0/biocompute/man/export_pdf.Rd | 2 biocompute-1.1.0/biocompute/man/export_sevenbridges.Rd | 2 biocompute-1.1.0/biocompute/man/export_word.Rd | 2 biocompute-1.1.0/biocompute/man/read_bco.Rd |only biocompute-1.1.0/biocompute/man/validate_checksum.Rd | 12 biocompute-1.1.0/biocompute/man/validate_schema.Rd | 12 52 files changed, 543 insertions(+), 480 deletions(-)
Title: Command Line Optional and Positional Argument Parser
Description: A command line parser to
be used with Rscript to write "#!" shebang scripts that gracefully
accept positional and optional arguments and automatically generate usage.
Author: Trevor L Davis [aut, cre],
Allen Day [ctb] (Some documentation and examples ported from the getopt
package.),
Python Software Foundation [ctb] (Some documentation from the optparse
Python module.),
Paul Newell [ctb]
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>
Diff between argparse versions 2.1.1 dated 2021-09-08 and 2.1.2 dated 2021-10-21
DESCRIPTION | 6 ++--- MD5 | 16 ++++++++------ NEWS.md | 9 +++++++- R/argparse.R | 20 +++++++++++++++-- README.md | 11 +++++---- build/vignette.rds |binary inst/doc/argparse.html | 46 ++++++++++++++++++++--------------------- man/figures |only tests/testthat/test-argparse.R | 14 +++++++++++- 9 files changed, 79 insertions(+), 43 deletions(-)
Title: Data Structures and Algorithms for Relations
Description: Data structures and algorithms for k-ary relations with
arbitrary domains, featuring relational algebra, predicate functions,
and fitters for consensus relations.
Author: David Meyer [aut],
Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>),
Christian Buchta [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between relations versions 0.6-9 dated 2019-10-26 and 0.6-10 dated 2021-10-21
DESCRIPTION | 6 ++-- MD5 | 30 ++++++++++----------- build/partial.rdb |binary build/vignette.rds |binary data/Cetacea.rda |binary data/Felines.rda |binary data/SVM_Benchmarking_Classification.rda |binary data/SVM_Benchmarking_Classification_Consensus.rda |binary data/SVM_Benchmarking_Regression.rda |binary data/SVM_Benchmarking_Regression_Consensus.rda |binary inst/NEWS.Rd | 12 ++++++++ inst/doc/relations.R | 1 inst/doc/relations.pdf |binary man/consensus.Rd | 2 - man/dissimilarity.Rd | 2 - vignettes/relations.bib | 4 +- 16 files changed, 34 insertions(+), 23 deletions(-)
Title: Create Reports Using R and 'asciidoc'
Description: Inspired by Karl Broman`s reader on using 'knitr'
with 'asciidoc'
(<https://kbroman.org/knitr_knutshell/pages/asciidoc.html>), this is
merely a wrapper to 'knitr' and 'asciidoc'.
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between rasciidoc versions 3.1.3 dated 2021-08-22 and 3.1.4 dated 2021-10-21
DESCRIPTION | 8 - MD5 | 10 - NEWS.md | 4 inst/NEWS.rd | 6 inst/doc/An_Introduction_to_rasciidoc.html | 178 ++++++----------------------- inst/runit_tests/runit-render.R | 5 6 files changed, 60 insertions(+), 151 deletions(-)
Title: 'Apple App Store' and 'iTunes' Data Extraction
Description: Using 'Apple App Store' <https://www.apple.com/app-store/> web scraping and 'iTunes' API
<https://affiliate.itunes.apple.com/resources/documentation/itunes-store-web-service-search-api/>
to extract content information, app ratings and reviews.
Author: Ashley Baldry [aut, cre]
Maintainer: Ashley Baldry <arbaldry91@gmail.com>
Diff between appler versions 0.1.1 dated 2021-05-24 and 0.1.2 dated 2021-10-21
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/reviews.R | 6 +++++- tests/testthat/test-chart.R | 15 --------------- 5 files changed, 19 insertions(+), 25 deletions(-)
More information about CoordinateCleaner at CRAN
Permanent link
More information about scatterPlotMatrix at CRAN
Permanent link
Title: R Analyzer for Large-Scale Assessments
Description: Prepare and analyze data from large-scale assessments and surveys with
complex sampling and assessment design (see 'Rutkowski', 2010
<doi:10.3102/0013189X10363170>). Such studies are, for example,
international assessments like 'TIMSS', 'PIRLS' and 'PISA'. A graphical
interface is available for the non-technical user.The package includes
functions to covert the original data from 'SPSS' into 'R' data sets
keeping the user-defined missing values, merge data from different
respondents and/or countries, generate variable dictionaries, modify
data, produce descriptive statistics (percentages, means, percentiles,
benchmarks) and multivariate statistics (correlations, linear
regression, binary logistic regression). The number of supported
studies and analysis types will increase in future. For a general
presentation of the package, see 'Mirazchiyski', 2021a
(<doi:10.1186/s40536-021-00114-4>). For detailed technical aspects of the
package, see 'Mirazchiyski', 2021b (<doi:10.3390/psych3020018>).
Author: Plamen V. Mirazchiyski [aut, cre],
INERI [aut]
Maintainer: Plamen V. Mirazchiyski <plamen.mirazchiyski@ineri.org>
Diff between RALSA versions 1.0.1 dated 2021-05-28 and 1.0.2 dated 2021-10-21
DESCRIPTION | 19 MD5 | 38 NAMESPACE | 2 NEWS.md | 25 R/RALSA.r | 11 R/common.r | 685 +++----- R/lsa.bench.r | 365 +--- R/lsa.bin.log.reg.r | 244 -- R/lsa.convert.data.r | 658 -------- R/lsa.corr.r | 139 - R/lsa.data.diag.r | 187 -- R/lsa.lin.reg.r | 278 --- R/lsa.merge.data.r | 1237 ++++++--------- R/lsa.pcts.means.r | 104 - R/lsa.prctls.r | 113 - R/lsa.recode.vars.r | 77 R/lsa.vars.dict.r | 265 +-- inst/shiny/GUI/server.r | 2419 +++-------------------------- inst/shiny/GUI/ui.r | 3941 +++++++++++++++++++++--------------------------- man/RALSA.Rd | 6 20 files changed, 3219 insertions(+), 7594 deletions(-)
More information about opGMMassessment at CRAN
Permanent link
Title: Harvest Metadata Using OAI-PMH Version 2.0
Description: Harvest metadata using the Open Archives Initiative Protocol for Metadata
Harvesting (OAI-PMH) version 2.0 (for more information, see
<https://www.openarchives.org/OAI/openarchivesprotocol.html>).
Author: Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between OAIHarvester versions 0.3-2 dated 2021-05-03 and 0.3-3 dated 2021-10-21
DESCRIPTION | 8 ++++---- MD5 | 34 +++++++++++++++++----------------- R/pmh.R | 10 +++++----- R/providers.R | 2 +- R/transform.R | 22 +++++++++++----------- R/utils.R | 6 +++--- R/verb.R | 2 +- build/vignette.rds |binary inst/doc/oaih.R | 2 +- inst/doc/oaih.Rnw | 26 +++++++++++++------------- inst/doc/oaih.pdf |binary man/providers.Rd | 6 +++--- man/serialize.Rd | 2 +- man/size.Rd | 4 ++-- man/transform.Rd | 2 +- man/verb.Rd | 2 +- vignettes/oaih.Rnw | 26 +++++++++++++------------- vignettes/oaih.bib | 8 ++++---- 18 files changed, 81 insertions(+), 81 deletions(-)
Title: Nonparametric Regression and Bandwidth Selection for Spatial
Models
Description: Nonparametric smoothing techniques for data on a lattice and
functional time series. Smoothing is done via kernel regression or
local polynomial regression, a bandwidth selection procedure based on
an iterative plug-in algorithm is implemented. This package allows for
modeling a dependency structure of the error terms of the
nonparametric regression model. Methods used in this paper are
described in Feng/Schaefer (2021)
<https://ideas.repec.org/p/pdn/ciepap/144.html>, Schaefer/Feng (2021)
<https://ideas.repec.org/p/pdn/ciepap/143.html>.
Author: Bastian Schaefer [aut, cre],
Sebastian Letmathe [ctb],
Yuanhua Feng [ths]
Maintainer: Bastian Schaefer <bastian.schaefer@uni-paderborn.de>
Diff between DCSmooth versions 1.0.2 dated 2021-08-25 and 1.1.2 dated 2021-10-21
DCSmooth-1.0.2/DCSmooth/R/BandwidthSelection_AdditionalFunctions.R |only DCSmooth-1.0.2/DCSmooth/R/DCS_Methods.R |only DCSmooth-1.0.2/DCSmooth/R/SM_QARMAAdditionalFunctions.R |only DCSmooth-1.0.2/DCSmooth/R/SM_QARMAEstimation.R |only DCSmooth-1.0.2/DCSmooth/R/SM_SARMAEstimation.R |only DCSmooth-1.0.2/DCSmooth/man/qarma.est.Rd |only DCSmooth-1.0.2/DCSmooth/man/qarma.sim.Rd |only DCSmooth-1.0.2/DCSmooth/src/LP_ConstBndw_BMod.cpp |only DCSmooth-1.0.2/DCSmooth/src/LP_ConstWindow_BMod.cpp |only DCSmooth-1.1.2/DCSmooth/DESCRIPTION | 51 DCSmooth-1.1.2/DCSmooth/MD5 | 146 - DCSmooth-1.1.2/DCSmooth/NAMESPACE | 42 DCSmooth-1.1.2/DCSmooth/NEWS.md | 26 DCSmooth-1.1.2/DCSmooth/R/BandwidthSelection_KR.R | 156 - DCSmooth-1.1.2/DCSmooth/R/BandwidthSelection_LP.R | 170 - DCSmooth-1.1.2/DCSmooth/R/DCS_CheckExceptions.R | 234 + DCSmooth-1.1.2/DCSmooth/R/DCS_HelperFunctionsForMain.R | 10 DCSmooth-1.1.2/DCSmooth/R/DCS_MainFunctions.R | 505 +++- DCSmooth-1.1.2/DCSmooth/R/DCS_ParallelFunctions.R |only DCSmooth-1.1.2/DCSmooth/R/LM_FunctionsBndwSelection.R | 22 DCSmooth-1.1.2/DCSmooth/R/LM_SFARIMAAdditionalFunctions.R | 175 - DCSmooth-1.1.2/DCSmooth/R/LM_SFARIMAEstimation.R | 145 - DCSmooth-1.1.2/DCSmooth/R/LM_kdf.R | 6 DCSmooth-1.1.2/DCSmooth/R/Methods_DCS.R |only DCSmooth-1.1.2/DCSmooth/R/Methods_LM_SM.R |only DCSmooth-1.1.2/DCSmooth/R/RcppExports.R | 124 - DCSmooth-1.1.2/DCSmooth/R/SM_FunctionsBandwSelection.R |only DCSmooth-1.1.2/DCSmooth/R/SM_SARMA_AdditionalFunctions.R |only DCSmooth-1.1.2/DCSmooth/R/SM_SARMA_Estimation.R |only DCSmooth-1.1.2/DCSmooth/R/SM_SARMA_UserFunctions.R |only DCSmooth-1.1.2/DCSmooth/R/SM_VarEstimation.R | 80 DCSmooth-1.1.2/DCSmooth/R/SM_nonparametric.R | 4 DCSmooth-1.1.2/DCSmooth/R/data.R | 68 DCSmooth-1.1.2/DCSmooth/R/sysdata.rda |binary DCSmooth-1.1.2/DCSmooth/README.md | 27 DCSmooth-1.1.2/DCSmooth/build/partial.rdb |binary DCSmooth-1.1.2/DCSmooth/build/vignette.rds |binary DCSmooth-1.1.2/DCSmooth/data/returns.alv.rda |only DCSmooth-1.1.2/DCSmooth/data/temp.nunn.rda |only DCSmooth-1.1.2/DCSmooth/data/temp.yuma.rda |only DCSmooth-1.1.2/DCSmooth/data/volumes.alv.rda |only DCSmooth-1.1.2/DCSmooth/data/wind.nunn.rda |only DCSmooth-1.1.2/DCSmooth/data/wind.yuma.rda |only DCSmooth-1.1.2/DCSmooth/data/y.norm1.rda |binary DCSmooth-1.1.2/DCSmooth/data/y.norm2.rda |binary DCSmooth-1.1.2/DCSmooth/data/y.norm3.rda |binary DCSmooth-1.1.2/DCSmooth/inst/doc/DCSmooth.R | 130 - DCSmooth-1.1.2/DCSmooth/inst/doc/DCSmooth.Rmd | 562 +++- DCSmooth-1.1.2/DCSmooth/inst/doc/DCSmooth.html | 1239 ++++++---- DCSmooth-1.1.2/DCSmooth/man/dcs.Rd | 32 DCSmooth-1.1.2/DCSmooth/man/figures/README-example-1.png |binary DCSmooth-1.1.2/DCSmooth/man/kernel.assign.Rd |only DCSmooth-1.1.2/DCSmooth/man/kernel.list.Rd |only DCSmooth-1.1.2/DCSmooth/man/plot.dcs.Rd | 2 DCSmooth-1.1.2/DCSmooth/man/print.dcs.Rd | 2 DCSmooth-1.1.2/DCSmooth/man/print.dcs_options.Rd | 2 DCSmooth-1.1.2/DCSmooth/man/print.summary_dcs.Rd | 2 DCSmooth-1.1.2/DCSmooth/man/print.summary_sarma.Rd |only DCSmooth-1.1.2/DCSmooth/man/residuals.dcs.Rd | 2 DCSmooth-1.1.2/DCSmooth/man/returns.alv.Rd |only DCSmooth-1.1.2/DCSmooth/man/sarma.est.Rd |only DCSmooth-1.1.2/DCSmooth/man/sarma.sim.Rd |only DCSmooth-1.1.2/DCSmooth/man/set.options.Rd | 133 - DCSmooth-1.1.2/DCSmooth/man/sfarima.est.Rd | 14 DCSmooth-1.1.2/DCSmooth/man/sfarima.sim.Rd | 12 DCSmooth-1.1.2/DCSmooth/man/summary.dcs.Rd | 11 DCSmooth-1.1.2/DCSmooth/man/summary.dcs_options.Rd | 2 DCSmooth-1.1.2/DCSmooth/man/summary.sarma.Rd |only DCSmooth-1.1.2/DCSmooth/man/surface.dcs.Rd | 10 DCSmooth-1.1.2/DCSmooth/man/temp.nunn.Rd |only DCSmooth-1.1.2/DCSmooth/man/temp.yuma.Rd |only DCSmooth-1.1.2/DCSmooth/man/volumes.alv.Rd |only DCSmooth-1.1.2/DCSmooth/man/wind.nunn.Rd |only DCSmooth-1.1.2/DCSmooth/man/wind.yuma.Rd |only DCSmooth-1.1.2/DCSmooth/src/DCSmooth_kernels.h |only DCSmooth-1.1.2/DCSmooth/src/KR_ConstBndw.cpp | 11 DCSmooth-1.1.2/DCSmooth/src/KR_ConstWindow.cpp | 3 DCSmooth-1.1.2/DCSmooth/src/KernelFunctions.cpp | 351 -- DCSmooth-1.1.2/DCSmooth/src/Kernels_M.cpp |only DCSmooth-1.1.2/DCSmooth/src/Kernels_MW.cpp |only DCSmooth-1.1.2/DCSmooth/src/Kernels_T.cpp |only DCSmooth-1.1.2/DCSmooth/src/LP_ConstBndw.cpp | 120 DCSmooth-1.1.2/DCSmooth/src/LP_ConstWindow.cpp | 55 DCSmooth-1.1.2/DCSmooth/src/RcppExports.cpp | 404 ++- DCSmooth-1.1.2/DCSmooth/src/ar_coef.cpp | 90 DCSmooth-1.1.2/DCSmooth/src/sarma_rss.cpp |only DCSmooth-1.1.2/DCSmooth/src/sfarima_rss.cpp | 176 - DCSmooth-1.1.2/DCSmooth/tests/testthat/test-dcs.R | 477 +++ DCSmooth-1.1.2/DCSmooth/tests/testthat/test-dcs_exceptions.R |only DCSmooth-1.1.2/DCSmooth/tests/testthat/test-kernels.R |only DCSmooth-1.1.2/DCSmooth/tests/testthat/test-parallel.R |only DCSmooth-1.1.2/DCSmooth/tests/testthat/test-sarma_sfarima.R |only DCSmooth-1.1.2/DCSmooth/tests/testthat/test-set_options.R | 83 DCSmooth-1.1.2/DCSmooth/tests/testthat/test_var_model.R |only DCSmooth-1.1.2/DCSmooth/vignettes/DCSmooth.Rmd | 562 +++- DCSmooth-1.1.2/DCSmooth/vignettes/literature.bib | 20 96 files changed, 4183 insertions(+), 2315 deletions(-)
Title: A New Age-Period-Cohort Model for Describing and Investigating
Inter-Cohort Differences and Life Course Dynamics
Description: It implemented Age-Period-Interaction Model (APC-I Model) proposed in the paper of Liying Luo and James S. Hodges in 2019. A new age-period-cohort model for describing and investigating inter-cohort differences and life course dynamics.
Author: Jiahui Xu [aut, cre],
Liying Luo [aut]
Maintainer: Jiahui Xu <jpx5053@psu.edu>
Diff between APCI versions 1.0.2 dated 2021-10-01 and 1.0.3 dated 2021-10-21
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/apci.R | 2 +- R/temp6_model.R | 2 +- 4 files changed, 8 insertions(+), 8 deletions(-)
Title: A Modern and Easy-to-Use Crypto Library
Description: Bindings to 'libsodium': a modern, easy-to-use software library for
encryption, decryption, signatures, password hashing and more. Sodium uses
curve25519, a state-of-the-art Diffie-Hellman function by Daniel Bernstein,
which has become very popular after it was discovered that the NSA had
backdoored Dual EC DRBG.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between sodium versions 1.1 dated 2017-03-31 and 1.2.0 dated 2021-10-21
DESCRIPTION | 12 +- MD5 | 42 ++++---- NAMESPACE | 2 NEWS | 3 R/hashing.R | 16 +++ build/vignette.rds |binary cleanup | 2 configure | 42 ++++---- inst/doc/crypto101.R | 24 ++-- inst/doc/crypto101.html | 214 +++++++++++++++++++++++++++--------------- inst/doc/crypto101.rmd | 2 inst/doc/intro.R | 22 ++-- inst/doc/intro.html | 239 ++++++++++++++++++++++++++++++------------------ inst/doc/intro.rmd | 8 - man/hash.Rd | 15 ++- man/helpers.Rd | 1 man/stream.Rd | 2 man/symmetric.Rd | 2 src/hashing.c | 20 ++++ src/helpers.c | 18 ++- vignettes/crypto101.rmd | 2 vignettes/intro.rmd | 8 - 22 files changed, 439 insertions(+), 257 deletions(-)
Title: Efficient Bayesian Inference for Time-Varying Parameter Models
with Shrinkage
Description: Efficient Markov chain Monte Carlo (MCMC) algorithms for fully Bayesian estimation of time-varying parameter models with shrinkage priors. Details on the algorithms used are provided in Bitto and Frühwirth-Schnatter (2019) <doi:10.1016/j.jeconom.2018.11.006> and
Cadonna et al. (2020) <doi:10.3390/econometrics8020020>.
Author: Peter Knaus [aut, cre] (<https://orcid.org/0000-0001-6498-7084>),
Angela Bitto-Nemling [aut],
Annalisa Cadonna [aut] (<https://orcid.org/0000-0003-0360-7628>),
Sylvia Frühwirth-Schnatter [aut]
(<https://orcid.org/0000-0003-0516-5552>),
Daniel Winkler [ctb],
Kemal Dingic [ctb]
Maintainer: Peter Knaus <peter.knaus@wu.ac.at>
Diff between shrinkTVP versions 2.0.2 dated 2021-05-13 and 2.0.3 dated 2021-10-21
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 7 +++++++ R/plot_functions.R | 6 +++--- R/shrinkTVP.R | 10 +++++----- R/shrinkTVP_methods.R | 4 ++-- build/vignette.rds |binary inst/doc/shrinkTVP.pdf |binary inst/include/shrinkTVP.h | 37 +++++++++++++++++++++++++++++++++++++ src/exports.cpp | 1 + src/sample_DG_TVP.cpp | 2 +- src/sample_TG_TVP.cpp | 4 ++-- 12 files changed, 72 insertions(+), 27 deletions(-)
Title: Analysing Convergent Evolution using the Wheatsheaf Index
Description: Analysing convergent evolution using the Wheatsheaf index, described in Arbuckle et al. (2014) <doi: 10.1111/2041-210X.12195>, and some other random but perhaps useful functions.
Author: Kevin Arbuckle and Amanda Minter
Maintainer: Kevin Arbuckle <kevin.arbuckle@swansea.ac.uk>
Diff between windex versions 2.0.2 dated 2021-04-14 and 2.0.3 dated 2021-10-21
DESCRIPTION | 8 ++++---- MD5 | 8 +++++--- R/pir.R |only man/error.bars.Rd | 2 +- man/pir.Rd |only man/windex-package.Rd | 4 ++-- 6 files changed, 12 insertions(+), 10 deletions(-)
Title: Robust and Sparse Correlation Matrix
Description: Performs robust and sparse correlation matrix estimation. Robustness is achieved based on a simple robust pairwise correlation estimator, while sparsity is obtained based on thresholding. The optimal thresholding is tuned via cross-validation. See Serra, Coretto, Fratello and Tagliaferri (2018) <doi:10.1093/bioinformatics/btx642>.
Author: Luca Coraggio [cre, aut],
Pietro Coretto [aut],
Angela Serra [aut],
Roberto Tagliaferri [ctb]
Maintainer: Luca Coraggio <luca.coraggio@unina.it>
Diff between RSC versions 2.0 dated 2021-10-17 and 2.0.1 dated 2021-10-21
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 6 ++++++ R/rmad.R | 2 ++ man/rmad.Rd | 18 ++++++++++++------ src/init.c | 9 +++------ 6 files changed, 32 insertions(+), 21 deletions(-)
Title: Handling, Visualisation and Analysis of Epidemiological Contacts
Description: A collection of tools for representing epidemiological contact data, composed of case line lists and contacts between cases. Also contains procedures for data handling, interactive graphics, and statistics.
Author: Finlay Campbell [aut, cre],
Thibaut Jombart [aut],
Nistara Randhawa [aut],
Bertrand Sudre [aut],
VP Nagraj [aut],
Thomas Crellen [aut],
Zhian N. Kamvar [aut]
Maintainer: Finlay Campbell <finlaycampbell93@gmail.com>
Diff between epicontacts versions 1.1.0 dated 2017-11-21 and 1.1.2 dated 2021-10-21
DESCRIPTION | 36 - MD5 | 84 ++-- NAMESPACE | 1 NEWS.md | 21 + R/as.igraph.epicontacts.R | 7 R/get_clusters.R | 7 R/get_degree.R | 18 R/get_id.R | 80 ++-- R/handling.R | 125 +++--- R/make_epicontacts.R | 33 - R/plot.R | 3 R/print.summary_epicontacts.R | 8 R/subset_clusters_by_id.R | 32 + R/summary.epicontacts.R | 9 R/thin.R | 4 R/vis_epicontacts.R | 141 +++++-- build/vignette.rds |binary inst/CITATION |only inst/doc/epicontacts.R | 42 +- inst/doc/epicontacts.html | 556 +++++++++++++++------------- inst/doc/epicontacts_class.R | 24 - inst/doc/epicontacts_class.html | 303 +++++++++------ man/codeawesome.Rd | 4 man/get_clusters.Rd | 10 man/get_id.Rd | 9 man/graph3D.Rd | 15 man/make_epicontacts.Rd | 12 man/plot.epicontacts.Rd | 12 man/sub-.epicontacts.Rd | 11 man/subset.epicontacts.Rd | 13 man/vis_epicontacts.Rd | 39 + tests/testthat/rds/print.rds |only tests/testthat/rds/print1.rds |binary tests/testthat/rds/z.rds |binary tests/testthat/rds/zz.rds |binary tests/testthat/test_as.igraph.epicontacts.R | 17 tests/testthat/test_get_clusters.R | 51 ++ tests/testthat/test_get_pairwise.R | 4 tests/testthat/test_handling.R | 109 ++--- tests/testthat/test_plot.epicontacts.R | 52 +- tests/testthat/test_print.epicontacts.R | 22 - tests/testthat/test_subset.epicontacts.R | 41 +- tests/testthat/test_summary.epicontacts.R | 8 tests/testthat/test_thin.R | 8 44 files changed, 1217 insertions(+), 754 deletions(-)
Title: A Method to Estimate the Accuracy and Biogeographical Status of
Georeferenced Biological Data
Description: Automated assessment of accuracy and geographical status of georeferenced biological data. The methods rely on reference regions, namely checklists and range maps. Includes functions to obtain data from the Global Biodiversity Information Facility <https://www.gbif.org/> and from the Global Inventory of Floras and Traits <https://gift.uni-goettingen.de/home>. Alternatively, the user can input their own data. Furthermore, provides easy visualisation of the data and the results through the plotting functions. Especially suited for large datasets. The reference for the methodology is: Arlé et al. (under review).
Author: Eduardo Arlé [aut, cre],
Alexander Zizka [aut],
Patrick Weigelt [ctb],
Sam Levin [ctb],
Carsten Meyer [ths]
Maintainer: Eduardo Arlé <eduardo.arle@idiv.de>
Diff between bRacatus versions 1.0.4 dated 2021-05-28 and 1.0.5 dated 2021-10-21
DESCRIPTION | 8 MD5 | 16 - NAMESPACE | 2 NEWS.md | 12 + R/countryChecklists.R | 4 R/glonafRegions.R |only build/vignette.rds |binary inst/CITATION | 11 - inst/doc/Using_bRacatus.html | 405 +++++++++++-------------------------------- man/glonafRegions.Rd |only 10 files changed, 143 insertions(+), 315 deletions(-)
Title: Create Interactive Chart with the JavaScript 'ApexCharts'
Library
Description: Provides an 'htmlwidgets' interface to 'apexcharts.js'.
'Apexcharts' is a modern JavaScript charting library to build interactive charts and visualizations with simple API.
'Apexcharts' examples and documentation are available here: <https://apexcharts.com/>.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
Juned Chhipa [cph] (apexcharts.js library),
Mike Bostock [cph] (d3.format library)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between apexcharter versions 0.2.0 dated 2021-05-11 and 0.3.0 dated 2021-10-21
apexcharter-0.2.0/apexcharter/inst/doc/chart-options.R |only apexcharter-0.2.0/apexcharter/inst/doc/chart-options.Rmd |only apexcharter-0.2.0/apexcharter/inst/doc/chart-options.html |only apexcharter-0.2.0/apexcharter/inst/doc/facets.R |only apexcharter-0.2.0/apexcharter/inst/doc/facets.Rmd |only apexcharter-0.2.0/apexcharter/inst/doc/facets.html |only apexcharter-0.2.0/apexcharter/inst/doc/shiny-integration.R |only apexcharter-0.2.0/apexcharter/inst/doc/shiny-integration.Rmd |only apexcharter-0.2.0/apexcharter/inst/doc/shiny-integration.html |only apexcharter-0.2.0/apexcharter/inst/doc/spark-box.R |only apexcharter-0.2.0/apexcharter/inst/doc/spark-box.Rmd |only apexcharter-0.2.0/apexcharter/inst/doc/spark-box.html |only apexcharter-0.2.0/apexcharter/inst/doc/sync-charts.R |only apexcharter-0.2.0/apexcharter/inst/doc/sync-charts.Rmd |only apexcharter-0.2.0/apexcharter/inst/doc/sync-charts.html |only apexcharter-0.2.0/apexcharter/inst/htmlwidgets/apexcharter.css |only apexcharter-0.2.0/apexcharter/inst/htmlwidgets/apexcharter.yaml |only apexcharter-0.2.0/apexcharter/inst/htmlwidgets/assets |only apexcharter-0.2.0/apexcharter/vignettes/articles |only apexcharter-0.2.0/apexcharter/vignettes/chart-options.Rmd |only apexcharter-0.2.0/apexcharter/vignettes/facets.Rmd |only apexcharter-0.2.0/apexcharter/vignettes/figures |only apexcharter-0.2.0/apexcharter/vignettes/shiny-integration.Rmd |only apexcharter-0.2.0/apexcharter/vignettes/spark-box.Rmd |only apexcharter-0.2.0/apexcharter/vignettes/sync-charts.Rmd |only apexcharter-0.3.0/apexcharter/DESCRIPTION | 8 apexcharter-0.3.0/apexcharter/MD5 | 249 - apexcharter-0.3.0/apexcharter/NEWS.md | 9 apexcharter-0.3.0/apexcharter/R/annotations.R | 15 apexcharter-0.3.0/apexcharter/R/apex.R | 4 apexcharter-0.3.0/apexcharter/R/apexcharter.R | 4 apexcharter-0.3.0/apexcharter/R/format.R | 8 apexcharter-0.3.0/apexcharter/README.md | 41 apexcharter-0.3.0/apexcharter/build/vignette.rds |binary apexcharter-0.3.0/apexcharter/inst/apexcharts-locale |only apexcharter-0.3.0/apexcharter/inst/d3-format-locale |only apexcharter-0.3.0/apexcharter/inst/doc/apexcharter.R | 3 apexcharter-0.3.0/apexcharter/inst/doc/apexcharter.Rmd | 3 apexcharter-0.3.0/apexcharter/inst/doc/apexcharter.html | 1733 ---------- apexcharter-0.3.0/apexcharter/inst/htmlwidgets/apexcharter.js | 358 -- apexcharter-0.3.0/apexcharter/inst/htmlwidgets/apexcharter.js.LICENSE.txt |only apexcharter-0.3.0/apexcharter/man/add_event.Rd | 3 apexcharter-0.3.0/apexcharter/man/add_event_marker.Rd | 5 apexcharter-0.3.0/apexcharter/man/add_point.Rd | 14 apexcharter-0.3.0/apexcharter/man/label.Rd | 3 apexcharter-0.3.0/apexcharter/vignettes/apexcharter.Rmd | 3 apexcharter-0.3.0/apexcharter/vignettes/extra |only 47 files changed, 329 insertions(+), 2134 deletions(-)
Title: Utilities for the Simulation and Analysis of Random Fields
Description: Various utilities are provided that might be used in spatial statistics and elsewhere. It delivers a method for solving linear equations that checks the sparsity of the matrix before any algorithm is used. Furthermore, it includes the Struve functions.
Author: Martin Schlather [aut, cre], Reinhard Furrer [ctb], Martin Kroll [ctb], Brian D. Ripley [ctb]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
Diff between RandomFieldsUtils versions 0.5.5 dated 2021-10-05 and 0.5.6 dated 2021-10-21
DESCRIPTION | 6 +-- MD5 | 25 +++++++------- inst/include/Basic_utils.h | 52 +++++++++++++++++++++++++++-- inst/include/Basic_utils_local.h | 1 inst/include/General_utils.h | 1 inst/include/errors_messages.h | 10 ++++- inst/include/intrinsics.h | 69 +-------------------------------------- inst/include/parallel_simd.h |only src/Basic_utils.h | 52 +++++++++++++++++++++++++++-- src/General_utils.h | 1 src/errors_messages.h | 10 ++++- src/intrinsics.h | 3 + src/solve.cc | 17 +++++++-- src/win_linux_aux.cc | 11 +++--- 14 files changed, 157 insertions(+), 101 deletions(-)
More information about RandomFieldsUtils at CRAN
Permanent link
Title: Data Analysis Part of 'IOHprofiler'
Description: The data analysis module for the Iterative Optimization Heuristics
Profiler ('IOHprofiler'). This module provides statistical analysis methods for the
benchmark data generated by optimization heuristics, which can be visualized through a
web-based interface. The benchmark data is usually generated by the
experimentation module, called 'IOHexperimenter'. 'IOHanalyzer' also supports
the widely used 'COCO' (Comparing Continuous Optimisers) data format for benchmarking.
Author: Hao Wang [cre, aut],
Diederick Vermetten [aut],
Carola Doerr [aut],
Thomas Bäck [aut]
Maintainer: Hao Wang <h.wang@liacs.leidenuniv.nl>
Diff between IOHanalyzer versions 0.1.5.2 dated 2021-05-31 and 0.1.6.1 dated 2021-10-21
IOHanalyzer-0.1.5.2/IOHanalyzer/inst/shiny-server/ui/mockup_ontology.R |only IOHanalyzer-0.1.5.2/IOHanalyzer/inst/temp.rds |only IOHanalyzer-0.1.6.1/IOHanalyzer/DESCRIPTION | 15 IOHanalyzer-0.1.6.1/IOHanalyzer/LICENSE | 4 IOHanalyzer-0.1.6.1/IOHanalyzer/MD5 | 254 +- IOHanalyzer-0.1.6.1/IOHanalyzer/NAMESPACE | 10 IOHanalyzer-0.1.6.1/IOHanalyzer/R/DataSet.R | 247 +- IOHanalyzer-0.1.6.1/IOHanalyzer/R/DataSetList.R | 285 ++- IOHanalyzer-0.1.6.1/IOHanalyzer/R/IOHanalyzer-deprecated.R | 390 ++-- IOHanalyzer-0.1.6.1/IOHanalyzer/R/IOHanalyzer.R | 253 +- IOHanalyzer-0.1.6.1/IOHanalyzer/R/data.R | 32 IOHanalyzer-0.1.6.1/IOHanalyzer/R/plot.R | 743 +++---- IOHanalyzer-0.1.6.1/IOHanalyzer/R/plotDataSetList.R | 67 IOHanalyzer-0.1.6.1/IOHanalyzer/R/readFiles.R | 86 IOHanalyzer-0.1.6.1/IOHanalyzer/R/runServer.R | 38 IOHanalyzer-0.1.6.1/IOHanalyzer/R/stats.R | 47 IOHanalyzer-0.1.6.1/IOHanalyzer/README.md | 336 +-- IOHanalyzer-0.1.6.1/IOHanalyzer/data/dsl.rda |binary IOHanalyzer-0.1.6.1/IOHanalyzer/data/dsl_large.rda |binary IOHanalyzer-0.1.6.1/IOHanalyzer/inst/extdata/ONE_PLUS_LAMDA_EA/IOHprofiler_f1_i1.info | 4 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/extdata/ONE_PLUS_LAMDA_EA/data_f1/IOHprofiler_f1_DIM100_i1.dat | 944 +++++----- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/extdata/ONE_PLUS_LAMDA_EA_ws/IOHprofiler_fbla_i1.info | 6 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/extdata/ONE_PLUS_LAMDA_EA_ws/IOHprofiler_fblubb_i1.info | 6 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/extdata/ONE_PLUS_LAMDA_EA_ws/data_fbla/IOHprofiler_fbla_DIM100_i1.dat | 944 +++++----- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/extdata/ONE_PLUS_LAMDA_EA_ws/data_fblubb/IOHprofiler_fblubb_DIM100_i1.dat | 944 +++++----- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/LICENSE.txt | 58 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/global.R | 524 ++--- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/FV_PAR_SUMMARY_TABLE.Rmd | 18 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/INSTALL.Rmd | 78 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/PAR_SUMMARY_TABLE.Rmd | 18 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/RT_OVERVIEW_TABLE.Rmd | 20 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/RT_SUMMARY_TABLE.Rmd | 18 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/ECDF_AUC.Rmd | 80 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/ECDF_Aggregated.Rmd | 54 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/ECDF_Single_Function.Rmd | 80 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/ECDF_Single_Target.Rmd | 62 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/FV_ECDF_AUC.Rmd | 80 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/FV_ECDF_Single_Function.Rmd | 84 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/FV_ECDF_Single_Target.Rmd | 64 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/FV_Histogram.Rmd | 64 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/FV_PMF.Rmd | 64 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/FV_Rank.Rmd | 44 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/Multi_ERT.Rmd | 44 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/Multi_FCE.Rmd | 42 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/Param_plot.Rmd | 78 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/RT_Histogram.Rmd | 64 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/RT_PMF.Rmd | 64 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/RT_Rank.Rmd | 46 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/Single_ERT.Rmd | 80 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/Single_FCE.Rmd | 70 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/Template_test.Rmd | 930 ++++----- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/Report/bibliography.bib | 20 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/TAR_SUMMARY_TABLE.Rmd | 14 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/about.md | 194 +- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/dataformat.md | 210 +- IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/docs.Rmd | 52 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/quantile.Rmd | 18 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/markdown/welcome.md | 90 IOHanalyzer-0.1.6.1/IOHanalyzer/inst/shiny-server/server.R | 130 - 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IOHanalyzer-0.1.6.1/IOHanalyzer/tests/testthat/test_data_generation.R | 232 +- IOHanalyzer-0.1.6.1/IOHanalyzer/tests/testthat/test_diagram_examples_with_string_names.R | 72 132 files changed, 9082 insertions(+), 8585 deletions(-)
Title: Monotonic Binning for Credit Rating Models
Description: Performs monotonic binning of numeric risk factor in credit rating models (PD, LGD, EAD)
development. All functions handle both binary and continuous target variable.
Functions that use isotonic regression in the first stage of binning process have an additional
feature for correction of minimum percentage of observations and minimum target rate per bin.
Additionally, monotonic trend can be identified based on raw data or, if known in advance,
forced by functions' argument. Missing values and other possible special values are treated
separately from so-called complete cases.
Author: Andrija Djurovic [aut, cre]
Maintainer: Andrija Djurovic <djandrija@gmail.com>
Diff between monobin versions 0.1.1 dated 2021-08-02 and 0.2.0 dated 2021-10-21
DESCRIPTION | 6 +++--- MD5 | 25 ++++++++++++++----------- NAMESPACE | 1 + NEWS.md | 9 +++++++-- R/00_GLOBALS.R | 2 +- R/01_PCT_BINNING.R | 1 - R/02_ISO_BINNING.R | 1 - R/03_WOE_BINNING.R | 1 - R/04_CUM_BINNING.R | 1 - R/05_STS_BINNING.R | 1 - R/06_NDR_BINNING.R | 1 - R/07_MDT_BINNING.R |only R/99_CHECKS.R | 6 +++--- README.md |only man/mdt.bin.Rd |only 15 files changed, 29 insertions(+), 26 deletions(-)
Title: Interface with 'Nominatim' API Service
Description: Lite interface for getting data from 'OSM' service
'Nominatim' <https://nominatim.org/release-docs/latest/>. Extract
coordinates from addresses, find places near a set of coordinates,
search for amenities and return spatial objects on 'sf' format.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>),
Jindra Lacko [ctb, rev]
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between nominatimlite versions 0.1.2 dated 2021-10-07 and 0.1.3 dated 2021-10-21
nominatimlite-0.1.2/nominatimlite/inst/doc/nominatimlite.R |only nominatimlite-0.1.3/nominatimlite/DESCRIPTION | 15 - nominatimlite-0.1.3/nominatimlite/MD5 | 84 ++++---- nominatimlite-0.1.3/nominatimlite/NEWS.md | 60 +++--- nominatimlite-0.1.3/nominatimlite/R/geo_address_lookup.R | 20 -- nominatimlite-0.1.3/nominatimlite/R/geo_address_lookup_sf.R | 20 -- nominatimlite-0.1.3/nominatimlite/R/geo_amenity.R | 23 -- nominatimlite-0.1.3/nominatimlite/R/geo_amenity_sf.R | 22 -- nominatimlite-0.1.3/nominatimlite/R/geo_lite.R | 22 -- nominatimlite-0.1.3/nominatimlite/R/geo_lite_sf.R | 39 +--- nominatimlite-0.1.3/nominatimlite/R/nominatim_check_access.R | 94 ++++++++-- nominatimlite-0.1.3/nominatimlite/R/reverse_geo_lite.R | 23 -- nominatimlite-0.1.3/nominatimlite/R/reverse_geo_lite_sf.R | 24 -- nominatimlite-0.1.3/nominatimlite/README.md | 70 +++---- nominatimlite-0.1.3/nominatimlite/build/vignette.rds |binary nominatimlite-0.1.3/nominatimlite/data/osm_amenities.rda |binary nominatimlite-0.1.3/nominatimlite/inst/WORDLIST | 5 nominatimlite-0.1.3/nominatimlite/inst/doc/nominatimlite.Rmd | 25 +- nominatimlite-0.1.3/nominatimlite/inst/doc/nominatimlite.html | 4 nominatimlite-0.1.3/nominatimlite/man/api_call.Rd |only nominatimlite-0.1.3/nominatimlite/man/figures/README-McDonalds-1.png |binary nominatimlite-0.1.3/nominatimlite/man/figures/README-line-object-1.png |binary nominatimlite-0.1.3/nominatimlite/man/figures/README-penta-1.png |binary nominatimlite-0.1.3/nominatimlite/man/geo_address_lookup.Rd | 7 nominatimlite-0.1.3/nominatimlite/man/geo_address_lookup_sf.Rd | 11 - nominatimlite-0.1.3/nominatimlite/man/geo_amenity.Rd | 7 nominatimlite-0.1.3/nominatimlite/man/geo_amenity_sf.Rd | 11 - nominatimlite-0.1.3/nominatimlite/man/geo_lite.Rd | 7 nominatimlite-0.1.3/nominatimlite/man/geo_lite_sf.Rd | 24 +- nominatimlite-0.1.3/nominatimlite/man/nominatim_check_access.Rd | 11 - nominatimlite-0.1.3/nominatimlite/man/nominatimlite-package.Rd | 1 nominatimlite-0.1.3/nominatimlite/man/reverse_geo_lite.Rd | 7 nominatimlite-0.1.3/nominatimlite/man/reverse_geo_lite_sf.Rd | 11 - nominatimlite-0.1.3/nominatimlite/tests/testthat/test-geo_address_lookup.R | 10 - nominatimlite-0.1.3/nominatimlite/tests/testthat/test-geo_address_lookup_sf.R | 8 nominatimlite-0.1.3/nominatimlite/tests/testthat/test-geo_amenity.R | 5 nominatimlite-0.1.3/nominatimlite/tests/testthat/test-geo_amenity_sf.R | 5 nominatimlite-0.1.3/nominatimlite/tests/testthat/test-geo_lite.R | 9 nominatimlite-0.1.3/nominatimlite/tests/testthat/test-geo_lite_sf.R | 9 nominatimlite-0.1.3/nominatimlite/tests/testthat/test-reverse_geo_lite.R | 7 nominatimlite-0.1.3/nominatimlite/tests/testthat/test-reverse_geo_lite_sf.R | 8 nominatimlite-0.1.3/nominatimlite/vignettes/McDonalds-1.png |binary nominatimlite-0.1.3/nominatimlite/vignettes/nominatimlite.Rmd | 25 +- nominatimlite-0.1.3/nominatimlite/vignettes/penta-1.png |binary 44 files changed, 403 insertions(+), 330 deletions(-)
Title: Operationalizing Social Determinants of Health Data for
Researchers
Description: Accesses raw data via API and calculates social
determinants of health measures for user-specified locations in the
US, returning them in tidyverse- and sf-compatible data frames.
Author: Nik Krieger [aut, cre],
Jarrod Dalton [aut],
Cindy Wang [aut],
Adam Perzynski [aut],
National Institutes of Health/National Institute on Aging [fnd] (The
development of this software package was supported by a research
grant from the National Institutes of Health/National Institute on
Aging, (Principal Investigators: Jarrod E. Dalton, PhD and Adam T.
Perzynski, PhD; Grant Number: 5R01AG055480-02). All of its contents
are solely the responsibility of the authors and do not necessarily
represent the official views of the NIH.)
Maintainer: Nik Krieger <nk@case.edu>
Diff between sociome versions 2.0.0 dated 2021-02-24 and 2.1.0 dated 2021-10-21
sociome-2.0.0/sociome/R/sysdata.rda |only sociome-2.0.0/sociome/inst |only sociome-2.1.0/sociome/DESCRIPTION | 18 sociome-2.1.0/sociome/MD5 | 44 - sociome-2.1.0/sociome/NAMESPACE | 5 sociome-2.1.0/sociome/NEWS.md | 7 sociome-2.1.0/sociome/R/calculate_adi.R | 231 +++--- sociome-2.1.0/sociome/R/census_api_key.R | 2 sociome-2.1.0/sociome/R/centers.R |only sociome-2.1.0/sociome/R/data_documentation.R | 4 sociome-2.1.0/sociome/R/dissimilarity.R |only sociome-2.1.0/sociome/R/get_adi.R | 233 +++--- sociome-2.1.0/sociome/R/get_geoids.R | 34 sociome-2.1.0/sociome/R/utils-pipe.R | 1 sociome-2.1.0/sociome/R/validation.R | 354 +++++++--- sociome-2.1.0/sociome/data/acs_vars.rda |binary sociome-2.1.0/sociome/data/decennial_vars.rda |binary sociome-2.1.0/sociome/man/acs_vars.Rd | 2 sociome-2.1.0/sociome/man/append_dissimilarities.Rd |only sociome-2.1.0/sociome/man/calculate_adi.Rd | 73 -- sociome-2.1.0/sociome/man/census_api_key.Rd | 2 sociome-2.1.0/sociome/man/get_adi.Rd | 269 +++---- sociome-2.1.0/sociome/man/get_areas_near_coordinates.Rd |only sociome-2.1.0/sociome/man/get_geoids.Rd | 32 sociome-2.1.0/sociome/man/lon_lat_from_area.Rd |only sociome-2.1.0/sociome/tests/testthat/nmcounties.rda |only sociome-2.1.0/sociome/tests/testthat/test_tidycensus_related.R | 81 ++ 27 files changed, 819 insertions(+), 573 deletions(-)
Title: Reddit Data Extraction Toolkit
Description: A collection of tools for extracting structured data from <https://www.reddit.com/>.
Author: Ivan Rivera <ivan.s.rivera@gmail.com>
Maintainer: Ivan Rivera <ivan.s.rivera@gmail.com>
Diff between RedditExtractoR versions 3.0.3 dated 2021-09-03 and 3.0.5 dated 2021-10-21
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 8 ++++++++ R/find_thread_urls.R | 1 + R/parsers.R | 4 +--- README.md | 5 +++++ 6 files changed, 24 insertions(+), 12 deletions(-)
More information about RedditExtractoR at CRAN
Permanent link
Title: Proportional Odds Model with Censored, Time-Lagged Categorical
Outcome
Description: Implements a semiparametric estimator for the odds ratio model with
censored, time-lagged, ordered categorical outcome in a randomized clinical
trial that incorporates baseline and time-dependent information.
Tsiatis, A. A. and Davidian, M. (2021) <arXiv:2106.15559>.
Author: Marie Davidian [aut],
A. A. Tsiatis [aut],
Shannon T. Holloway [aut, cre]
Maintainer: Shannon T. Holloway <sthollow@ncsu.edu>
Diff between tLagPropOdds versions 1.1 dated 2021-10-20 and 1.2 dated 2021-10-21
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 8 +++++++- R/aipw.R | 18 +++++++----------- 4 files changed, 20 insertions(+), 18 deletions(-)
Title: The Flexible Spatial Scan Statistic
Description: Functions for the detection of spatial clusters using the flexible
spatial scan statistic developed by Tango and Takahashi (2005) <doi:10.1186/1476-072X-4-11>.
This package implements a wrapper for the C routine used in the FleXScan 3.1.2
<https://sites.google.com/site/flexscansoftware/home> developed by Takahashi,
Yokoyama, and Tango. For details, see Otani et al. (2021) <doi:10.18637/jss.v099.i13>.
Author: Takahiro Otani,
Kunihiko Takahashi
Maintainer: Takahiro Otani <otani@med.nagoya-cu.ac.jp>
Diff between rflexscan versions 0.4.0 dated 2021-01-19 and 1.0.0 dated 2021-10-21
DESCRIPTION | 12 ++++++------ MD5 | 17 +++++++++-------- NAMESPACE | 1 - NEWS.md | 6 +++++- R/RcppExports.R | 44 ++++++++++++++++++++++---------------------- R/flexscan.R | 9 ++++++++- inst |only man/rflexscan-package.Rd | 3 +++ man/rflexscan.Rd | 6 +++++- src/RcppExports.cpp | 5 +++++ 10 files changed, 63 insertions(+), 40 deletions(-)
Title: Access, Retrieve, and Work with Canadian Census Data and
Geography
Description: Integrated, convenient, and uniform access to Canadian
Census data and geography retrieved using the 'CensusMapper' API. This package produces analysis-ready
tidy data frames and spatial data in multiple formats, as well as convenience functions
for working with Census variables, variable hierarchies, and region selection. API
keys are freely available with free registration at <https://censusmapper.ca/api>.
Census data and boundary geometries are reproduced and distributed on an "as
is" basis with the permission of Statistics Canada (Statistics Canada 2001; 2006;
2011; 2016).
Author: Jens von Bergmann [aut] (API creator and maintainer),
Dmitry Shkolnik [aut, cre] (Package maintainer, responsible for
correspondence),
Aaron Jacobs [aut]
Maintainer: Dmitry Shkolnik <shkolnikd@gmail.com>
Diff between cancensus versions 0.4.5 dated 2021-10-20 and 0.4.6 dated 2021-10-21
DESCRIPTION | 6 +++--- MD5 | 6 +++--- inst/doc/Making_maps_with_cancensus.html | 8 ++++---- man/child_census_vectors.Rd | 3 ++- 4 files changed, 12 insertions(+), 11 deletions(-)
Title: User-Friendly Tables with Color Helpers for Data Exploration
Description: Make it easy to deal with multiple cross-tables in data
exploration, by creating them, manipulating them, and adding color
helpers to highlight important informations. All functions are "tidy",
pipe-friendly, and render data frames which can be easily manipulated.
Tables can be exported to Excel and in html with formats and colors.
Author: Brice Nocenti [aut, cre]
Maintainer: Brice Nocenti <brice.nocenti@gmail.com>
Diff between tabxplor versions 1.0.1 dated 2021-09-14 and 1.0.2 dated 2021-10-21
tabxplor-1.0.1/tabxplor/man/tab_core.Rd |only tabxplor-1.0.2/tabxplor/DESCRIPTION | 10 tabxplor-1.0.2/tabxplor/MD5 | 62 tabxplor-1.0.2/tabxplor/NAMESPACE | 1 tabxplor-1.0.2/tabxplor/NEWS.md | 19 tabxplor-1.0.2/tabxplor/R/fmt_class.R | 230 +- tabxplor-1.0.2/tabxplor/R/tab.R | 167 + tabxplor-1.0.2/tabxplor/R/tab_classes.R | 355 ++- tabxplor-1.0.2/tabxplor/R/tab_xl.R | 345 +-- tabxplor-1.0.2/tabxplor/R/utils.R | 4 tabxplor-1.0.2/tabxplor/README.md | 25 tabxplor-1.0.2/tabxplor/build/vignette.rds |binary tabxplor-1.0.2/tabxplor/inst/doc/tabxplor.R | 9 tabxplor-1.0.2/tabxplor/inst/doc/tabxplor.Rmd | 28 tabxplor-1.0.2/tabxplor/inst/doc/tabxplor.html | 2094 +++++++++++++++++-- tabxplor-1.0.2/tabxplor/man/fmt.Rd | 2 tabxplor-1.0.2/tabxplor/man/format.tabxplor_fmt.Rd | 8 tabxplor-1.0.2/tabxplor/man/new_tab.Rd | 2 tabxplor-1.0.2/tabxplor/man/tab.Rd | 6 tabxplor-1.0.2/tabxplor/man/tab_chi2.Rd | 4 tabxplor-1.0.2/tabxplor/man/tab_ci.Rd | 4 tabxplor-1.0.2/tabxplor/man/tab_kable.Rd | 31 tabxplor-1.0.2/tabxplor/man/tab_many.Rd | 29 tabxplor-1.0.2/tabxplor/man/tab_pct.Rd | 6 tabxplor-1.0.2/tabxplor/man/tab_plain.Rd |only tabxplor-1.0.2/tabxplor/man/tab_prepare.Rd | 6 tabxplor-1.0.2/tabxplor/man/tab_spread.Rd | 5 tabxplor-1.0.2/tabxplor/man/tab_tot.Rd | 4 tabxplor-1.0.2/tabxplor/man/tab_totaltab.Rd | 4 tabxplor-1.0.2/tabxplor/man/tab_xl.Rd | 18 tabxplor-1.0.2/tabxplor/tests/testthat/test-tab.R | 792 +++---- tabxplor-1.0.2/tabxplor/tests/testthat/test-tab_xl.R | 15 tabxplor-1.0.2/tabxplor/vignettes/tabxplor.Rmd | 28 33 files changed, 3268 insertions(+), 1045 deletions(-)
Title: Text Processing for Small or Big Data Files
Description: It offers functions for splitting, parsing, tokenizing and creating a vocabulary for big text data files. Moreover, it includes functions for building a document-term matrix and extracting information from those (term-associations, most frequent terms). It also embodies functions for calculating token statistics (collocations, look-up tables, string dissimilarities) and functions to work with sparse matrices. Lastly, it includes functions for Word Vector Representations (i.e. 'GloVe', 'fasttext') and incorporates functions for the calculation of (pairwise) text document dissimilarities. The source code is based on 'C++11' and exported in R through the 'Rcpp', 'RcppArmadillo' and 'BH' packages.
Author: Lampros Mouselimis [aut, cre] (<https://orcid.org/0000-0002-8024-1546>)
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between textTinyR versions 1.1.5 dated 2021-10-13 and 1.1.6 dated 2021-10-21
DESCRIPTION | 10 MD5 | 16 NEWS.md | 5 README.md | 2 build/vignette.rds |binary inst/doc/functionality_of_textTinyR_package.html | 4 inst/doc/word_vectors_doc2vec.html | 4 tests/testthat/helper-function_for_tests.R | 89 + tests/testthat/test-tokenization_transformation.R | 1105 +++++++++++----------- 9 files changed, 636 insertions(+), 599 deletions(-)
Title: Access the 'City of Vancouver' Open Data API
Description: Wrapper around the 'City of Vancouver' Open Data API <https://opendata.vancouver.ca/api/v2/console> to simplify and standardize access to 'City of Vancouver' open data.
Functionality to list the data catalogue and access data and geographic records.
Author: Jens von Bergmann
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Diff between VancouvR versions 0.1.6 dated 2021-07-09 and 0.1.7 dated 2021-10-21
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ README.md | 2 +- inst/doc/Demo.html | 38 +++++++++++++++++++------------------- inst/doc/Isolines.html | 4 +++- man/aggregate_cov_data.Rd | 2 ++ man/get_cov_data.Rd | 2 ++ man/get_cov_metadata.Rd | 2 ++ man/list_cov_datasets.Rd | 2 ++ man/search_cov_datasets.Rd | 2 ++ 11 files changed, 52 insertions(+), 35 deletions(-)
Title: High Dimensional Bayesian Ridge Regression without MCMC
Description: The svd(singular value decomposition) or qr decomposition was using for the implementation, this avoid the recursion optimizing the time in the compute.
Author: Sergio Perez-Elizalde Developer [aut],
Blanca Monroy-Castillo Developer [aut, cre],
Paulino Perez-Rodriguez User [ctb],
Jose Crossa User [ctb]
Maintainer: Blanca Monroy-Castillo Developer <blancamonroy.96@gmail.com>
Diff between HDBRR versions 1.1.1 dated 2021-09-22 and 1.1.2 dated 2021-10-21
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/HDBRR.R | 2 +- R/plot.HDBRR.R | 4 ++-- R/summary.HDBRR.R | 4 ++-- build/vignette.rds |binary inst/doc/HDBRR.Rnw | 12 ++++++------ inst/doc/HDBRR.pdf |binary vignettes/HDBRR.Rnw | 12 ++++++------ 9 files changed, 28 insertions(+), 28 deletions(-)
Title: Analyze, Summarize, and Visualize Daily Streamflow Data
Description: The Flow Analysis Summary Statistics Tool for R, 'fasstr', provides various
functions to tidy and screen daily stream discharge data, calculate and visualize various summary statistics
and metrics, and compute annual trending and volume frequency analyses. It features useful function arguments
for filtering of and handling dates, customizing data and metrics, and the ability to pull daily data directly
from the Water Survey of Canada hydrometric database (<https://collaboration.cmc.ec.gc.ca/cmc/hydrometrics/www/>).
Author: Jon Goetz [aut, cre] (<https://orcid.org/0000-0002-4993-1119>),
Carl James Schwarz [aut],
Robin Pike [ctb],
Province of British Columbia [cph]
Maintainer: Jon Goetz <jon.goetz@gov.bc.ca>
Diff between fasstr versions 0.3.2 dated 2020-11-07 and 0.3.3 dated 2021-10-21
DESCRIPTION | 27 MD5 | 287 ++--- NEWS.md | 16 R/add_date_variables.R | 6 R/calc_daily_cumulative_stats.R | 3 R/calc_daily_stats.R | 21 R/calc_longterm_daily_stats.R | 14 R/calc_longterm_monthly_stats.R | 9 R/calc_monthly_stats.R | 11 R/compute_annual_trends.R | 21 R/compute_full_analysis.R | 6 R/compute_hydat_peak_frequencies.R | 2 R/fill_missing_dates.R | 127 -- R/plot_annual_cumulative_stats.R | 14 R/plot_annual_flow_timing.R | 2 R/plot_annual_lowflows.R | 4 R/plot_annual_outside_normal.R | 2 R/plot_annual_stats.R | 23 R/plot_daily_cumulative_stats.R | 3 R/plot_daily_stats.R | 6 R/plot_monthly_stats.R | 2 R/utils.R | 6 R/write_full_analysis.R | 2 build/vignette.rds |binary inst/doc/fasstr.html | 324 ------ inst/doc/fasstr_frequency_analysis.html | 316 ------ inst/doc/fasstr_full_analysis.R | 9 inst/doc/fasstr_full_analysis.Rmd | 9 inst/doc/fasstr_full_analysis.html | 348 +----- inst/doc/fasstr_trending_analysis.R | 10 inst/doc/fasstr_trending_analysis.Rmd | 12 inst/doc/fasstr_trending_analysis.html | 349 +----- inst/doc/fasstr_under_the_hood.Rmd | 3 inst/doc/fasstr_under_the_hood.html | 553 +++------- inst/doc/fasstr_users_guide.R | 2 inst/doc/fasstr_users_guide.Rmd | 8 inst/doc/fasstr_users_guide.html | 986 +++++++------------ man/add_basin_area.Rd | 116 +- man/add_cumulative_volume.Rd | 112 +- man/add_cumulative_yield.Rd | 144 +- man/add_daily_volume.Rd | 72 - man/add_daily_yield.Rd | 120 +- man/add_date_variables.Rd | 96 - man/add_rolling_means.Rd | 142 +- man/add_seasons.Rd | 112 +- man/calc_all_annual_stats.Rd | 304 ++--- man/calc_annual_cumulative_stats.Rd | 216 ++-- man/calc_annual_flow_timing.Rd | 186 +-- man/calc_annual_lowflows.Rd | 214 ++-- man/calc_annual_outside_normal.Rd | 190 +-- man/calc_annual_peaks.Rd | 208 ++-- man/calc_annual_stats.Rd | 242 ++-- man/calc_daily_cumulative_stats.Rd | 211 ++-- man/calc_daily_stats.Rd | 255 ++-- man/calc_flow_percentile.Rd | 186 +-- man/calc_longterm_daily_stats.Rd | 286 ++--- man/calc_longterm_mean.Rd | 182 +-- man/calc_longterm_monthly_stats.Rd | 285 ++--- man/calc_longterm_percentile.Rd | 180 +-- man/calc_monthly_cumulative_stats.Rd | 208 ++-- man/calc_monthly_stats.Rd | 251 ++-- man/compute_annual_frequencies.Rd | 280 ++--- man/compute_annual_trends.Rd | 345 +++--- man/compute_frequency_analysis.Rd | 186 +-- man/compute_frequency_quantile.Rd | 198 +-- man/compute_full_analysis.Rd | 290 ++--- man/compute_hydat_peak_frequencies.Rd | 184 +-- man/fasstr-package.Rd | 114 +- man/figures/fasstr_cheatsheet.png |only man/figures/plot1-1.png |binary man/figures/plot2-1.png |binary man/fill_missing_dates.Rd | 123 +- man/plot_annual_cumulative_stats.Rd | 214 +--- man/plot_annual_flow_timing.Rd | 178 +-- man/plot_annual_lowflows.Rd | 192 +-- man/plot_annual_means.Rd | 180 +-- man/plot_annual_outside_normal.Rd | 192 +-- man/plot_annual_stats.Rd | 253 ++-- man/plot_daily_cumulative_stats.Rd | 217 ++-- man/plot_daily_stats.Rd | 274 ++--- man/plot_data_screening.Rd | 192 +-- man/plot_flow_data.Rd | 216 ++-- man/plot_flow_duration.Rd | 242 ++-- man/plot_longterm_daily_stats.Rd | 240 ++-- man/plot_longterm_monthly_stats.Rd | 248 ++-- man/plot_missing_dates.Rd | 182 +-- man/plot_monthly_cumulative_stats.Rd | 220 ++-- man/plot_monthly_stats.Rd | 214 ++-- man/screen_flow_data.Rd | 222 ++-- man/write_flow_data.Rd | 172 +-- man/write_full_analysis.Rd | 304 ++--- man/write_objects_list.Rd | 112 +- man/write_plots.Rd | 124 +- man/write_results.Rd | 72 - tests/testthat/test-add_basin_area.R | 16 tests/testthat/test-add_cumulative_volume.R | 16 tests/testthat/test-add_cumulative_yield.R | 18 tests/testthat/test-add_daily_volume.R | 8 tests/testthat/test-add_daily_yield.R | 12 tests/testthat/test-add_date_variables.R | 28 tests/testthat/test-add_rolling_means.R | 16 tests/testthat/test-add_seasons.R | 12 tests/testthat/test-calc_all_annual_stats.R | 12 tests/testthat/test-calc_annual_cumulative_stats.R | 12 tests/testthat/test-calc_annual_flow_timing.R | 10 tests/testthat/test-calc_annual_lowflows.R | 12 tests/testthat/test-calc_annual_outside_normal.R | 8 tests/testthat/test-calc_annual_stats.R | 20 tests/testthat/test-calc_daily_cumulative_stats.R | 12 tests/testthat/test-calc_daily_stats.R | 20 tests/testthat/test-calc_flow_percentile.R | 6 tests/testthat/test-calc_longterm_daily_stats.R | 20 tests/testthat/test-calc_longterm_mean.R | 10 tests/testthat/test-calc_longterm_monthly_stats.R | 20 tests/testthat/test-calc_longterm_percentile.R | 8 tests/testthat/test-calc_monthly_cumulative_stats.R | 12 tests/testthat/test-calc_monthly_stats.R | 22 tests/testthat/test-compute_annual_frequencies.R | 4 tests/testthat/test-compute_annual_trends.R | 18 tests/testthat/test-compute_frequency_analysis.R | 4 tests/testthat/test-compute_frequency_quantile.R | 4 tests/testthat/test-compute_full_analysis.R | 4 tests/testthat/test-compute_hydat_peak_frequencies.R | 6 tests/testthat/test-fill_missing_dates.R | 20 tests/testthat/test-plot_annual_cumulative_stats.R | 8 tests/testthat/test-plot_annual_flow_timing.R | 4 tests/testthat/test-plot_annual_lowflows.R | 6 tests/testthat/test-plot_annual_means.R | 4 tests/testthat/test-plot_annual_outside_normal.R | 6 tests/testthat/test-plot_annual_stats.R | 4 tests/testthat/test-plot_daily_cumulative_stats.R | 4 tests/testthat/test-plot_daily_stats.R | 6 tests/testthat/test-plot_data_screening.R | 6 tests/testthat/test-plot_flow_data.R | 6 tests/testthat/test-plot_flow_duration.R | 6 tests/testthat/test-plot_longterm_daily_stats.R | 4 tests/testthat/test-plot_longterm_monthly_stats.R | 4 tests/testthat/test-plot_missing_dates.R | 4 tests/testthat/test-plot_monthly_cumulative_stats.R | 4 tests/testthat/test-plot_monthly_stats.R | 8 tests/testthat/test-screen_flow_data.R | 14 vignettes/fasstr_full_analysis.Rmd | 9 vignettes/fasstr_trending_analysis.Rmd | 12 vignettes/fasstr_under_the_hood.Rmd | 3 vignettes/fasstr_users_guide.Rmd | 8 145 files changed, 6572 insertions(+), 8189 deletions(-)
Title: Intergovernmental Organizations Database
Description: Tools to extract information from the Intergovernmental
Organizations ('IGO') Database , version 3, provided by the Correlates
of War Project <https://correlatesofwar.org/>. See also Pevehouse, J.
C. et al. (2020), <doi:10.1177/0022343319881175>. Version 3 includes
information from 1815 to 2014.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between igoR versions 0.1.2 dated 2021-08-04 and 0.1.3 dated 2021-10-20
igoR-0.1.2/igoR/inst/doc/mapping.R |only igoR-0.1.2/igoR/inst/schemaorg.json |only igoR-0.1.2/igoR/vignettes/AusShared.png |only igoR-0.1.2/igoR/vignettes/NAShared.png |only igoR-0.1.2/igoR/vignettes/UNMaps.png |only igoR-0.1.3/igoR/DESCRIPTION | 25 ++---- igoR-0.1.3/igoR/MD5 | 55 ++++++------- igoR-0.1.3/igoR/NEWS.md | 4 igoR-0.1.3/igoR/R/data.R | 33 +++++--- igoR-0.1.3/igoR/R/igo_dyadic.R | 3 igoR-0.1.3/igoR/R/sysdata.rda |binary igoR-0.1.3/igoR/README.md | 56 +++++++++---- igoR-0.1.3/igoR/build/partial.rdb |binary igoR-0.1.3/igoR/build/vignette.rds |binary igoR-0.1.3/igoR/data/igo_year_format3.rda |binary igoR-0.1.3/igoR/data/state_year_format3.rda |binary igoR-0.1.3/igoR/data/states2016.rda |binary igoR-0.1.3/igoR/inst/CITATION | 53 ++++++++++--- igoR-0.1.3/igoR/inst/WORDLIST |only igoR-0.1.3/igoR/inst/doc/igoR.R | 11 -- igoR-0.1.3/igoR/inst/doc/igoR.Rmd | 114 ++++++++++++---------------- igoR-0.1.3/igoR/inst/doc/igoR.html | 83 +------------------- igoR-0.1.3/igoR/inst/doc/mapping.Rmd | 44 +++------- igoR-0.1.3/igoR/inst/doc/mapping.html | 8 + igoR-0.1.3/igoR/man/igoR-package.Rd | 11 -- igoR-0.1.3/igoR/man/igo_year_format3.Rd | 8 + igoR-0.1.3/igoR/man/state_year_format3.Rd | 13 ++- igoR-0.1.3/igoR/man/states2016.Rd | 8 + igoR-0.1.3/igoR/vignettes/AustShared-1.png |only igoR-0.1.3/igoR/vignettes/NAShared-1.png |only igoR-0.1.3/igoR/vignettes/UNMaps-1.png |only igoR-0.1.3/igoR/vignettes/igoR.Rmd | 114 ++++++++++++---------------- igoR-0.1.3/igoR/vignettes/mapping.Rmd | 44 +++------- 33 files changed, 311 insertions(+), 376 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression;
- generalised linear mixed models;
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 5.0-0 dated 2021-10-11 and 5.0-1 dated 2021-10-20
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 17 ++++++++++++++++- R/forest.metabind.R | 32 ++++++++++++-------------------- R/mean-sd-internal.R | 13 +++++++------ R/meta-aux.R | 13 +++++++++---- R/meta-chk.R | 4 ++-- R/meta-internal.R | 18 +++++++++++++----- R/meta-set.R | 4 ++-- R/metamean.R | 29 ++++++++++++++++------------- R/print.meta.R | 30 +++++++++++++++++++----------- R/print.summary.meta.R | 12 ++++++++++-- R/settings.meta.R | 10 +++------- man/forest.metabind.Rd | 4 ++++ 14 files changed, 130 insertions(+), 90 deletions(-)
Title: Convert Vietnamese Encodings
Description: Conversion of characters from unsupported Vietnamese character encodings to Unicode characters. These Vietnamese encodings (TCVN3, VISCII, VPS) are not natively supported in R and lead to printing of wrong characters and garbled text (mojibake). This package fixes that problem and provides readable output with the correct Unicode characters (with or without diacritics).
Author: Juergen Niedballa [aut, cre] (<https://orcid.org/0000-0002-9187-2116>),
An The Truong Nguyen [ctb]
Maintainer: Juergen Niedballa <niedballa@izw-berlin.de>
Diff between vietnameseConverter versions 0.3.1 dated 2021-09-27 and 0.4.0 dated 2021-10-20
vietnameseConverter-0.3.1/vietnameseConverter/inst/doc/vietnameseConverter.R |only vietnameseConverter-0.3.1/vietnameseConverter/inst/doc/vietnameseConverter.Rmd |only vietnameseConverter-0.3.1/vietnameseConverter/inst/doc/vietnameseConverter.html |only vietnameseConverter-0.3.1/vietnameseConverter/vignettes/vietnameseConverter.Rmd |only vietnameseConverter-0.4.0/vietnameseConverter/DESCRIPTION | 14 - vietnameseConverter-0.4.0/vietnameseConverter/MD5 | 19 +- vietnameseConverter-0.4.0/vietnameseConverter/NAMESPACE | 4 vietnameseConverter-0.4.0/vietnameseConverter/NEWS | 5 vietnameseConverter-0.4.0/vietnameseConverter/R/decodeVN.R | 71 ++++++---- vietnameseConverter-0.4.0/vietnameseConverter/build/vignette.rds |binary vietnameseConverter-0.4.0/vietnameseConverter/inst/doc/vietnameseConverter.pdf |only vietnameseConverter-0.4.0/vietnameseConverter/inst/doc/vietnameseConverter.pdf.asis |only vietnameseConverter-0.4.0/vietnameseConverter/man/decodeVN.Rd | 31 +++- vietnameseConverter-0.4.0/vietnameseConverter/vignettes/vietnameseConverter.pdf.asis |only 14 files changed, 93 insertions(+), 51 deletions(-)
More information about vietnameseConverter at CRAN
Permanent link
Title: Deconvolution Estimation in Measurement Error Models
Description: A collection of functions to deal
with nonparametric measurement error problems using
deconvolution kernel methods. We focus two measurement error
models in the package: (1) an additive measurement error model,
where the goal is to estimate the density or distribution
function from contaminated data; (2) nonparametric regression
model with errors-in-variables. The R functions allow the
measurement errors to be either homoscedastic or
heteroscedastic. To make the deconvolution estimators
computationally more efficient in R, we adapt the "Fast Fourier
Transform" (FFT) algorithm for density estimation with
error-free data to the deconvolution kernel estimation. Several
methods for the selection of the data-driven smoothing
parameter are also provided in the package. See details in:
Wang, X.F. and Wang, B. (2011). Deconvolution estimation in
measurement error models: The R package decon. Journal of
Statistical Software, 39(10), 1-24.
Author: Xiao-Feng Wang, Bin Wang
Maintainer: Xiao-Feng Wang <wangx6@ccf.org>
Diff between decon versions 1.2-4 dated 2013-04-17 and 1.3-4 dated 2021-10-20
DESCRIPTION | 10 - MD5 | 20 +-- NAMESPACE | 9 + R/onload.R | 1 R/unknownME.R |only inst/CITATION | 5 man/DeconCPdf.Rd | 12 - man/DeconCdf.Rd | 19 +-- man/DeconPdf.Rd | 52 ++++---- man/npdenest.Rd |only man/npreg.Rd |only src/Ckernel.c | 269 +++++++++++++++++++++++++++++++++++++++++++- src/registerDynamicSymbol.c |only 13 files changed, 335 insertions(+), 62 deletions(-)
Title: Bayesian Meta-Analysis and Network Meta-Analysis
Description: Contains functions performing Bayesian inference for meta-analytic and network meta-analytic models through Markov chain Monte Carlo algorithm. Currently, the package implements Hui Yao, Sungduk Kim, Ming-Hui Chen, Joseph G. Ibrahim, Arvind K. Shah, and Jianxin Lin (2015) <doi:10.1080/01621459.2015.1006065> and Hao Li, Daeyoung Lim, Ming-Hui Chen, Joseph G. Ibrahim, Sungduk Kim, Arvind K. Shah, Jianxin Lin (2021) <doi:10.1002/sim.8983>. For maximal computational efficiency, the Markov chain Monte Carlo samplers for each model, written in C++, are fine-tuned. This software has been developed under the auspices of the National Institutes of Health and Merck & Co., Inc., Kenilworth, NJ, USA.
Author: Daeyoung Lim [aut, cre],
Ming-Hui Chen [ctb],
Sungduk Kim [ctb],
Joseph Ibrahim [ctb],
Arvind Shah [ctb],
Jianxin Lin [ctb]
Maintainer: Daeyoung Lim <daeyoung.lim@uconn.edu>
Diff between metapack versions 0.1.3 dated 2021-07-20 and 0.1.4 dated 2021-10-20
DESCRIPTION | 8 MD5 | 48 - R/RcppExports.R | 166 +++--- R/bayes.parobs.R | 1 R/meta_analyze.R | 2 build/vignette.rds |binary inst/doc/intro-to-metapack.R | 78 +-- inst/doc/intro-to-metapack.Rmd | 26 - inst/doc/intro-to-metapack.html | 990 ++++++++++++++++------------------------ src/BayesNMR.cpp | 18 src/RcppExports.cpp | 29 - src/fmodel1.cpp | 12 src/fmodel1p.cpp | 12 src/fmodel2.cpp | 12 src/fmodel2p.cpp | 12 src/fmodel2p5.cpp | 12 src/fmodel2p5p.cpp | 4 src/fmodel3.cpp | 28 - src/fmodel3pp.cpp | 30 - src/fmodel4.cpp | 26 - src/fmodel4p.cpp | 26 - src/gof_parcov.cpp | 7 src/linearalgebra.cpp | 93 +++ src/linearalgebra.h | 5 vignettes/intro-to-metapack.Rmd | 26 - 25 files changed, 754 insertions(+), 917 deletions(-)
Title: Detecting Anomalies in Data
Description: Implements Collective And Point Anomaly (CAPA) <arXiv:1806.01947>, Multi-Variate Collective And Point Anomaly (MVCAPA) <arXiv:1909.01691>, Proportion Adaptive Segment Selection (PASS) <doi:10.1093/biomet/ass059>, and Bayesian Abnormal Region Detector (BARD) <arXiv:1412.5565> methods for the detection of anomalies in time series data. Also includes sequential versions of CAPA and MVCAPA <arXiv:2009.06670>.
Author: Alex Fisch [aut],
Daniel Grose [aut, cre],
Lawrence Bardwell [aut, ctb],
Idris Eckley [aut, ths],
Paul Fearnhead [aut, ths]
Maintainer: Daniel Grose <dan.grose@lancaster.ac.uk>
Diff between anomaly versions 4.0.1 dated 2021-01-21 and 4.0.2 dated 2021-10-20
DESCRIPTION | 13 ++++----- MD5 | 60 +++++++++++++++++++++++---------------------- NAMESPACE | 9 ++++++ R/ac_corrected.R | 3 +- R/bard.R | 6 ++-- R/capa.R | 8 ++++-- R/capa.mv.R | 4 +-- R/capa.uv.R | 4 +-- R/data.R | 4 ++- R/moving_ac_corrected.R |only R/pass.R | 4 +-- R/pass.class.R | 2 - R/robustscale.R | 30 +++++++++++++--------- R/scapa.mv.R | 3 +- R/scapa.uv.R | 3 +- R/tierney.R | 29 ++++++++++++--------- build/partial.rdb |binary inst/REFERENCES.bib | 7 +++-- man/ac_corrected.Rd | 3 +- man/bard.Rd | 2 - man/capa.Rd | 2 - man/capa.mv.Rd | 2 - man/capa.uv.Rd | 2 - man/lightcurves-data.Rd | 4 ++- man/moving_ac_corrected.Rd |only man/pass.Rd | 2 - man/plot-methods.Rd | 28 ++++++++++----------- man/robustscale.Rd | 3 +- man/scapa.mv.Rd | 3 +- man/scapa.uv.Rd | 3 +- man/tierney.Rd | 2 - src/RcppExports.cpp | 5 +++ 32 files changed, 146 insertions(+), 104 deletions(-)
Title: IP Address Geolocation
Description: Connectors to online and offline sources for taking IP addresses
and geolocating them to country, city, timezone and other geographic ranges. For
individual connectors, see the package index.
Author: Os Keyes [aut, cre], Drew Schmidt [aut], David Robinson [ctb],
Chris Davis [ctb], Bob Rudis [ctb], Maxmind, Inc. [cph], Pascal Gloor [cph], IP2Location.com [cph]
Maintainer: Os Keyes <ironholds@gmail.com>
Diff between rgeolocate versions 1.3.1 dated 2020-05-17 and 1.4.1 dated 2021-10-20
DESCRIPTION | 12 - MD5 | 42 ++--- NEWS | 5 R/db_ip.R | 6 R/ip2location.R | 4 R/ip_api.R | 4 R/ipinfo.R | 4 R/maxmind.R | 2 README.md | 2 build/vignette.rds |binary configure.ac | 11 - inst/doc/Introduction_to_rgeolocate.Rmd | 12 - inst/doc/Introduction_to_rgeolocate.html | 240 ++++--------------------------- man/db_ip.Rd | 4 man/ip2location.Rd | 4 man/ip_api.Rd | 2 man/ip_info.Rd | 2 man/maxmind.Rd | 2 src/RcppExports.cpp | 5 tests/testthat/test_ip_api.R | 2 vignettes/Introduction_to_rgeolocate.Rmd | 12 - vignettes/Introduction_to_rgeolocate.md | 14 - 22 files changed, 114 insertions(+), 277 deletions(-)
Title: Reverse-Phase Protein Array Super Position and Concentration
Evaluation
Description: Provides tools for the analysis of reverse-phase protein arrays (RPPAs), which are also known as "tissue lysate arrays" or simply "lysate arrays". The package's primary purpose is to input a set of quantification files representing dilution series of samples and control points taken from scanned RPPA slides and determine a relative log concentration value for each valid dilution series present in each slide and provide graphical visualization of the input and output data and their relationships. Other optional features include generation of quality control scores for judging the quality of the input data, spatial adjustment of sample points based on controls added to the slides, and various types of normalization of calculated values across a set of slides. The package was derived from a previous package named SuperCurve. For a detailed description of data inputs and outputs, usage information, and a list of related papers describing methods used in the package please review the vignette "Guide_to_RPPASPACE". Hu (2007) <doi:10.1093/bioinformatics/btm283>.
Author: James M. Melott [aut, cre],
Paul Roebuck [aut],
Kevin R. Coombes [aut],
Shannon Neeley [aut],
Corwin Joy [aut],
Jianhua Hu [aut],
Keith Baggerly [aut]
Maintainer: James M. Melott <jmmelott@mdanderson.org>
Diff between RPPASPACE versions 1.0.7 dated 2020-12-10 and 1.0.8 dated 2021-10-20
DESCRIPTION | 18 MD5 | 43 - NAMESPACE | 3 NEWS | 19 R/rs1-rppa.R | 801 +++++++++++++------------ R/rs2-design.R | 26 R/rs3-1-dilutionFit.R | 1106 +++++++++++++++++------------------ R/rs3-2-mainFit.R | 10 R/rs5-rppaSet.R | 758 ++++++++++++++++++++--- R/rs98-settings.R | 18 R/rs99-fitcurve.R | 24 build/RPPASPACE.pdf |binary build/vignette.rds |binary inst/doc/Guide_to_RPPASPACE.Rmd | 12 inst/doc/Guide_to_RPPASPACE.pdf |binary inst/extdata/sampleCode/Run.R | 2 man/rs02-RPPADesignParams-class.Rd | 16 man/rs06-RPPAFitParams-class.Rd | 35 - man/rs11-RPPASet-class.Rd | 13 man/rs98-RPPASPACESettings-class.Rd | 14 vignettes/Guide_to_RPPASPACE.Rmd | 12 vignettes/images/oldsample_png_1.png |only vignettes/images/sample_png_1.png |binary 23 files changed, 1772 insertions(+), 1158 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 4.1 dated 2021-07-10 and 4.2 dated 2021-10-20
DESCRIPTION | 10 ++-- MD5 | 44 ++++++++++----------- R/IsoplotR.R | 34 ++++++++++++++-- R/server.R | 3 - inst/www/css/IsoplotR.css | 6 +- inst/www/css/jquery-ui.min.css | 4 - inst/www/help/isochron.html | 23 ++++++++--- inst/www/home/news.html | 30 +++++++------- inst/www/index.html | 1 inst/www/js/IsoplotR.js | 36 ++++++++--------- inst/www/js/jquery-ui.min.js | 13 +----- inst/www/js/jquery.min.js | 4 - inst/www/js/js2R.js | 12 +++++ inst/www/js/settings.json | 3 + inst/www/locales/en/contextual_help.json | 10 ++-- inst/www/locales/en/dictionary_id.json | 10 ++-- inst/www/locales/en/home_id.json | 2 inst/www/locales/es/contextual_help.json | 21 +++++++++- inst/www/locales/zh_Hans/contextual_help.json | 4 - inst/www/options/KDE.html | 3 - inst/www/options/concordia.html | 4 - inst/www/options/isochron.html | 54 ++++++++++++++++---------- inst/www/version.txt | 2 23 files changed, 206 insertions(+), 127 deletions(-)
Title: Proportional Odds Model with Censored, Time-Lagged Categorical
Outcome
Description: Implements a semiparametric estimator for the odds ratio model with
censored, time-lagged, ordered categorical outcome in a randomized clinical
trial that incorporates baseline and time-dependent information.
Tsiatis, A. A. and Davidian, M. (2021) <arXiv:2106.15559>.
Author: Marie Davidian [aut],
A. A. Tsiatis [aut],
Shannon T. Holloway [aut, cre]
Maintainer: Shannon T. Holloway <sthollow@ncsu.edu>
Diff between tLagPropOdds versions 1.0 dated 2021-07-01 and 1.1 dated 2021-10-20
DESCRIPTION | 8 ++++---- MD5 | 5 +++-- NEWS |only R/verifyInputs.R | 4 +++- 4 files changed, 10 insertions(+), 7 deletions(-)
Title: Summary Plots with Adjusted Error Bars
Description: Computes standard error and confidence interval of various descriptive statistics under
various designs and sampling schemes. The main function, superbPlot(), can either return a plot
or a dataframe with the statistic and its precision interval so that other plotting package
can be used. See Cousineau and colleagues (2021) <doi:10.1177/25152459211035109>
or Cousineau (2017) <doi:10.5709/acp-0214-z> for a review as well as Cousineau (2005)
<doi:10.20982/tqmp.01.1.p042>, Morey (2008) <doi:10.20982/tqmp.04.2.p061>, Baguley (2012)
<doi:10.3758/s13428-011-0123-7>, Cousineau & Laurencelle (2016) <doi:10.1037/met0000055>,
Cousineau & O'Brien (2014) <doi:10.3758/s13428-013-0441-z>, Calderini & Harding
<doi:10.20982/tqmp.15.1.p001> for specific references.
Author: Denis Cousineau [aut, cre],
Bradley Harding [ctb],
Marc-Andre Goulet [ctb],
Jesika Walker [art, pre]
Maintainer: Denis Cousineau <denis.cousineau@uottawa.ca>
Diff between superb versions 0.9.7.6 dated 2021-10-04 and 0.9.7.7 dated 2021-10-20
DESCRIPTION | 10 MD5 | 148 +++++----- NEWS.md | 6 R/TMB1964r.R | 28 - R/functionsPlotting_advanced.R | 36 +- R/functionsPlotting_base.R | 110 +++---- README.md | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/TheMakingOf.R | 16 - inst/doc/TheMakingOf.Rmd | 10 inst/doc/TheMakingOf.html | 30 -- inst/doc/Vignette1.R | 8 inst/doc/Vignette1.Rmd | 8 inst/doc/Vignette1.html | 6 inst/doc/Vignette2.R | 2 inst/doc/Vignette2.Rmd | 2 inst/doc/Vignette2.html | 2 inst/doc/Vignette3.R | 10 inst/doc/Vignette3.Rmd | 10 inst/doc/Vignette3.html | 10 inst/doc/Vignette4.R | 4 inst/doc/Vignette4.Rmd | 4 inst/doc/Vignette4.html | 4 inst/doc/Vignette5.R | 21 - inst/doc/Vignette5.Rmd | 8 inst/doc/Vignette5.html | 34 -- inst/doc/Vignette6.R | 4 inst/doc/Vignette6.Rmd | 4 inst/doc/Vignette6.html | 48 +-- inst/doc/Vignette7.R | 2 inst/doc/Vignette7.Rmd | 2 inst/doc/Vignette7.html | 2 inst/doc/Vignette8.R | 2 inst/doc/Vignette8.Rmd | 2 inst/doc/Vignette8.html | 2 inst/doc/Vignette9.R | 4 inst/doc/Vignette9.Rmd | 4 inst/doc/Vignette9.html | 14 inst/doc/VignetteA.R | 18 - inst/doc/VignetteA.Rmd | 22 - inst/doc/VignetteA.html | 48 +-- inst/doc/VignetteB.R | 4 inst/doc/VignetteB.Rmd | 4 inst/doc/VignetteB.html | 4 inst/doc/VignetteC.R | 4 inst/doc/VignetteC.Rmd | 4 inst/doc/VignetteC.html | 4 inst/doc/VignetteD.R |only inst/doc/VignetteD.Rmd |only inst/doc/VignetteD.html |only inst/extdata |only inst/superbShiny/App.R | 3 inst/superbShiny/rsconnect/shinyapps.io/superbplot/superbshiny.dcf | 6 man/TMB1964r.Rd | 28 - man/superbPlot.bar.Rd | 18 - man/superbPlot.halfwidthline.Rd | 18 - man/superbPlot.line.Rd | 18 - man/superbPlot.point.Rd | 18 - man/superbPlot.pointindividualline.Rd | 20 - man/superbPlot.pointjitter.Rd | 18 - man/superbPlot.pointjitterviolin.Rd | 18 - man/superbPlot.raincloud.Rd | 18 - vignettes/TheMakingOf.Rmd | 10 vignettes/Vignette1.Rmd | 8 vignettes/Vignette2.Rmd | 2 vignettes/Vignette3.Rmd | 10 vignettes/Vignette4.Rmd | 4 vignettes/Vignette5.Rmd | 8 vignettes/Vignette6.Rmd | 4 vignettes/Vignette7.Rmd | 2 vignettes/Vignette8.Rmd | 2 vignettes/Vignette9.Rmd | 4 vignettes/VignetteA.Rmd | 22 - vignettes/VignetteB.Rmd | 4 vignettes/VignetteC.Rmd | 4 vignettes/VignetteD.Rmd |only 77 files changed, 454 insertions(+), 548 deletions(-)
Title: Relative Importance of Regressors in Linear Models
Description: Provides several metrics for assessing relative importance in linear models. These can be printed, plotted and bootstrapped. The recommended metric is lmg, which provides a decomposition of the model explained variance into non-negative contributions. There is a version of this package available that additionally provides a new and also recommended metric called pmvd. If you are a non-US user, you can download this extended version from Ulrike Groempings web site.
Author: Ulrike Groemping [aut, cre],
Lehrkamp Matthias [ctb]
Maintainer: Ulrike Groemping <ulrike.groemping@bht-berlin.de>
Diff between relaimpo versions 2.2-5 dated 2021-05-15 and 2.2-6 dated 2021-10-20
DESCRIPTION | 16 ++++++++-------- MD5 | 16 ++++++++-------- R/booteval.relimp.R | 3 ++- inst/NEWS | 5 +++++ man/booteval.relimp.Rd | 2 +- man/calc.relimp.Rd | 2 +- man/classesmethods.relaimpo.Rd | 2 +- man/mianalyze.relimp.Rd | 2 +- man/relaimpo-package.Rd | 2 +- 9 files changed, 28 insertions(+), 22 deletions(-)
Title: Feature Importance for Partitional Clustering
Description: Implements a novel approach for measuring feature importance in k-means clustering. Importance of a feature is measured by the misclassification rate relative to the baseline cluster assignment due to a random permutation of feature values. An explanation of permutation feature importance in general can be found here: <https://christophm.github.io/interpretable-ml-book/feature-importance.html>.
Author: Oliver Pfaffel [aut, cre]
Maintainer: Oliver Pfaffel <opfaffel@gmail.com>
Diff between FeatureImpCluster versions 0.1.4 dated 2021-06-03 and 0.1.5 dated 2021-10-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/permmisclassrate.R | 4 +++- README.md | 14 ++++++++------ tests/testthat/test-permmisclassrate.R | 4 ++++ 6 files changed, 28 insertions(+), 16 deletions(-)
More information about FeatureImpCluster at CRAN
Permanent link
Title: Operations to Ease Data Analyses Specific to Nigeria
Description: A set of convenience functions as well as geographical/political
data about Nigeria, aimed at simplifying work with data and information that
are specific to the country.
Author: Victor Ordu [aut, cre] (<https://orcid.org/0000-0003-3716-0668>)
Maintainer: Victor Ordu <victorordu@outlook.com>
Diff between naijR versions 0.3.1 dated 2021-09-30 and 0.3.2 dated 2021-10-20
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ R/class-regions.R | 13 ++++++++++--- README.md | 4 ++-- inst/doc/nigeria-maps.html | 24 ++++++++++++------------ tests/testthat/test-isregion.R | 18 +++++++++++++----- tests/testthat/test-mobile.R | 4 ++-- 8 files changed, 57 insertions(+), 35 deletions(-)
Title: Monte Carlo Data Simulation Package
Description: Monte Carlo simulation allows to test different conditions given to the correct structural equation models. This package runs Monte Carlo simulations under different conditions (such as sample size or normality of data). Within the package data sets can be simulated and run based on the given model.
First, continuous and normal data sets are generated based on the given model. Later Fleishman's power method (1978) <DOI:10.1007/BF02293811> is used to add non-normality if exists.
When data generation is completed (or when generated data sets are given) model test can also be run.
Author: Fatih Orcan [aut, cre] (<https://orcid.org/0000-0003-1727-0456>)
Maintainer: Fatih Orcan <fatihorcan84@gmail.com>
Diff between MonteCarloSEM versions 0.0.2 dated 2021-04-22 and 0.0.3 dated 2021-10-20
MonteCarloSEM-0.0.2/MonteCarloSEM/R/sim_CFA_Normal.R |only MonteCarloSEM-0.0.2/MonteCarloSEM/R/sim_CFA_Skewed.R |only MonteCarloSEM-0.0.3/MonteCarloSEM/DESCRIPTION | 6 +++--- MonteCarloSEM-0.0.3/MonteCarloSEM/MD5 | 14 ++++++++------ MonteCarloSEM-0.0.3/MonteCarloSEM/NAMESPACE | 1 + MonteCarloSEM-0.0.3/MonteCarloSEM/R/sim_Categoric.R |only MonteCarloSEM-0.0.3/MonteCarloSEM/R/sim_Normal.R |only MonteCarloSEM-0.0.3/MonteCarloSEM/R/sim_Skewed.R |only MonteCarloSEM-0.0.3/MonteCarloSEM/man/sim.categoric.Rd |only MonteCarloSEM-0.0.3/MonteCarloSEM/man/sim.normal.Rd | 2 +- MonteCarloSEM-0.0.3/MonteCarloSEM/man/sim.skewed.Rd | 2 +- 11 files changed, 14 insertions(+), 11 deletions(-)
Title: Fitting Flexible Smooth-in-Time Hazards and Risk Functions via
Logistic and Multinomial Regression
Description: Fit flexible and fully parametric hazard regression models to survival data with single event type or multiple
competing causes via logistic and multinomial regression. Our formulation allows for arbitrary functional forms
of time and its interactions with other predictors for time-dependent hazards and hazard ratios. From the
fitted hazard model, we provide functions to readily calculate and plot cumulative incidence and survival
curves for a given covariate profile. This approach accommodates any log-linear hazard function of
prognostic time, treatment, and covariates, and readily allows for non-proportionality. We also provide
a plot method for visualizing incidence density via population time plots. Based on the case-base sampling
approach of Hanley and Miettinen (2009) <DOI:10.2202/1557-4679.1125>, Saarela and Arjas (2015) <DOI:10.1111/sjos.12125>,
and Saarela (2015) <DOI:10.1007/s10985-015-9352-x>.
Author: Sahir Bhatnagar [aut, cre] (http://sahirbhatnagar.com/),
Maxime Turgeon [aut] (<https://orcid.org/0000-0003-4863-6035>),
Jesse Islam [aut] (https://www.jesseislam.com/),
Olli Saarela [aut] (http://individual.utoronto.ca/osaarela/),
James Hanley [aut] (http://www.medicine.mcgill.ca/epidemiology/hanley/)
Maintainer: Sahir Bhatnagar <sahir.bhatnagar@gmail.com>
Diff between casebase versions 0.9.1 dated 2021-02-07 and 0.10.1 dated 2021-10-20
DESCRIPTION | 12 MD5 | 87 +- NAMESPACE | 3 NEWS.md | 7 R/absoluteRisk-cr.R | 6 R/absoluteRisk.R | 18 R/confint.R |only R/data.R | 3 R/estimate_hazard.R | 26 R/fitting.R | 122 +-- R/plot_methods.R | 3 R/utils.R | 13 README.md | 86 +- build/partial.rdb |binary build/vignette.rds |binary data/ERSPC.rda |binary inst/doc/competingRisk.html | 489 ++++---------- inst/doc/customizingpopTime.html | 627 ++++++------------ inst/doc/plotabsRisk.html | 392 ++--------- inst/doc/plotsmoothHazard.html | 1047 ++++++++++++------------------- inst/doc/popTime.html | 626 ++++++------------ inst/doc/smoothHazard.html | 494 ++++---------- man/ERSPC.Rd | 3 man/absoluteRisk.Rd | 3 man/confint.absRiskCB.Rd |only man/figures/README-plot-mason-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/fitSmoothHazard.Rd | 26 tests/testthat/Rplots.pdf |binary tests/testthat/test-absRisk.R | 2 tests/testthat/test-absRiskComp.R | 2 tests/testthat/test-confint.R |only tests/testthat/test-fitting.R | 2 tests/testthat/test-fittingComp.R | 22 tests/testthat/test-gam.R | 2 tests/testthat/test-gbm.R | 3 tests/testthat/test-glmnet.R | 3 tests/testthat/test-matrix.R | 2 tests/testthat/test-plotHazard.R | 35 - tests/testthat/test-plotSingleEventCB.R | 40 - tests/testthat/test-plotabsRiskCB.R | 2 tests/testthat/test-popTime.R | 2 tests/testthat/test-sampling.R | 2 vignettes/popTime.Rmd | 23 46 files changed, 1554 insertions(+), 2681 deletions(-)
Title: Misc Extensions for the 'SPOT' Package
Description: Implements additional models, simulation tools, and interfaces as extensions to 'SPOT'.
It provides tools for hyperparameter tuning via 'keras/tensorflow', interfacing 'mlr', for performing Markov chain simulations,
and for sensitivity analysis based on sequential bifurcation methods as described in Bettonvil and Kleijnen (1996).
Furthermore, additional plotting functions for output from 'SPOT' runs are implemented.
Bartz-Beielstein T, Lasarczyk C W G, Preuss M (2005) <doi:10.1109/CEC.2005.1554761>.
Bartz-Beielstein T, Zaefferer M, Rehbach F (2021) <arXiv:1712.04076>.
Bartz-Beielstein T, Rehbach F, Sen A, Zaefferer M <arXiv:2105.14625>.
Bettonvil, B, Kleijnen JPC (1996) <doi:10.1016/S0377-2217(96)00156-7>.
Author: Thomas Bartz-Beielstein [aut, cre]
(<https://orcid.org/0000-0002-5938-5158>),
Martin Zaefferer [aut] (<https://orcid.org/0000-0003-2372-2092>),
Frederik Rehbach [aut] (<https://orcid.org/0000-0003-0922-8629>)
Maintainer: Thomas Bartz-Beielstein <tbb@bartzundbartz.de>
Diff between SPOTMisc versions 1.2.11 dated 2021-08-04 and 1.2.18 dated 2021-10-20
DESCRIPTION | 10 +++--- MD5 | 22 ++++++++----- NAMESPACE | 5 +++ NEWS.md | 21 ++++++++++++ R/funKerasMnist.R | 77 +++++++++++++++++++++++------------------------ R/mlrTools.R | 15 +++++++++ R/resKerasMnist02.R |only R/spotPlot.R |only data/resKerasMnist02.rda |only man/evalKerasMnist.Rd | 16 +++------ man/funKerasMnist.Rd | 19 ++++------- man/getKerasConf.Rd | 36 ++++++++++++++------- man/resKerasMnist02.Rd |only man/spotPlot.Rd |only man/trans_1minus10pow.Rd |only 15 files changed, 135 insertions(+), 86 deletions(-)
Title: Global Sensitivity Analysis of Model Outputs
Description: A collection of functions for factor screening, global sensitivity analysis and robustness analysis. Most of the functions have to be applied on model with scalar output, but several functions support multi-dimensional outputs.
Author: Bertrand Iooss, Sebastien Da Veiga, Alexandre Janon and Gilles Pujol, with contributions from Baptiste Broto, Khalid Boumhaout, Thibault Delage, Reda El Amri, Jana Fruth, Laurent Gilquin, Joseph Guillaume, Margot Herin, Marouane Il Idrissi, Loic Le Gratiet, Paul Lemaitre, Amandine Marrel, Anouar Meynaoui, Barry L. Nelson, Filippo Monari, Roelof Oomen, Oldrich Rakovec, Bernardo Ramos, Olivier Roustant, Eunhye Song, Jeremy Staum, Roman Sueur, Taieb Touati, Vanessa Verges, Frank Weber
Maintainer: Bertrand Iooss <biooss@yahoo.fr>
Diff between sensitivity versions 1.26.1 dated 2021-09-02 and 1.27.0 dated 2021-10-20
DESCRIPTION | 8 ++++---- MD5 | 20 +++++++++++--------- NAMESPACE | 6 ++++++ NEWS | 6 ++++++ R/pme.R |only man/PLI.Rd | 34 ++++++++++++++++++++++++---------- man/emvd.Rd | 9 +++++---- man/lmg.Rd | 10 ++++------ man/pme.Rd |only man/sensitivity-package.Rd | 18 ++++++++---------- man/shapleysobol_knn.Rd | 2 +- man/sobolSmthSpl.Rd | 2 +- 12 files changed, 70 insertions(+), 45 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 4.1 dated 2021-07-09 and 4.2 dated 2021-10-20
IsoplotR-4.1/IsoplotR/R/UThPb.R |only IsoplotR-4.2/IsoplotR/DESCRIPTION | 8 IsoplotR-4.2/IsoplotR/MD5 | 36 +-- IsoplotR-4.2/IsoplotR/R/UPb.R | 107 ++++++--- IsoplotR-4.2/IsoplotR/R/age.R | 18 - IsoplotR-4.2/IsoplotR/R/ci.R | 12 - IsoplotR-4.2/IsoplotR/R/commonPb.R | 10 IsoplotR-4.2/IsoplotR/R/concordia.R | 36 --- IsoplotR-4.2/IsoplotR/R/discordia.R | 57 ++-- IsoplotR-4.2/IsoplotR/R/diseq.R | 2 IsoplotR-4.2/IsoplotR/R/io.R | 22 + IsoplotR-4.2/IsoplotR/R/isochron.R | 253 +++++++++++---------- IsoplotR-4.2/IsoplotR/R/ludwig.R | 385 +++++++++++++++++---------------- IsoplotR-4.2/IsoplotR/R/ludwig2d.R |only IsoplotR-4.2/IsoplotR/R/regression.R | 4 IsoplotR-4.2/IsoplotR/R/toolbox.R | 9 IsoplotR-4.2/IsoplotR/man/age2ratio.Rd | 18 - IsoplotR-4.2/IsoplotR/man/concordia.Rd | 4 IsoplotR-4.2/IsoplotR/man/isochron.Rd | 8 IsoplotR-4.2/IsoplotR/man/read.data.Rd | 4 20 files changed, 544 insertions(+), 449 deletions(-)
Title: Load Data from 'MyTarget API v2 and v3'
Description: Allows work with 'MyTarget Statistics API v2'
<https://target.my.com/adv/api-marketing/doc/stat-v2> and
'MyTarget Statistics API v3' <https://target.my.com/adv/api-marketing/doc/stat-v2#statisticsv3>
load data by ads, campaigns, agency clients and statistic from
your ads account.
Author: Alexey Seleznev [aut, cre] (<https://orcid.org/0000-0003-0410-7385>),
Netpeak [cph]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rmytarget versions 2.3.1 dated 2021-09-08 and 2.4.0 dated 2021-10-20
DESCRIPTION | 15 MD5 | 56 ++- NAMESPACE | 10 NEWS.md | 18 + R/myTarAuth.R | 62 +++- R/myTarGetAdList.R | 20 + R/myTarGetCampaignList.R | 20 + R/myTarGetClientList.R | 18 + R/myTarGetFastStats.R |only R/myTarGetGoalList.R | 14 R/myTarGetGoalsStats.R | 14 R/myTarGetInAppStats.R |only R/myTarGetOfflineConversionsStats.R |only R/myTarGetStats.R | 498 +++++++++++++++++++++++++++------ R/myTarRefreshToken.R | 15 R/zzz.R | 27 + build/partial.rdb |binary inst/doc/rmytarget-auth.html | 4 inst/doc/rmytarget-intro.html | 4 man/myTarAuth.Rd | 95 +++--- man/myTarGetAdList.Rd | 40 +- man/myTarGetCampaignList.Rd | 40 +- man/myTarGetClientList.Rd | 65 ++-- man/myTarGetFastStats.Rd |only man/myTarGetGoalList.Rd | 60 +-- man/myTarGetGoalsStats.Rd | 103 +++--- man/myTarGetInAppStats.Rd |only man/myTarGetOfflineConversionsStats.Rd |only man/myTarGetStats.Rd | 475 ++++++++++++++++--------------- man/myTarRefreshToken.Rd | 57 +-- man/myTarSetLogin.Rd |only man/myTarSetTokenPath.Rd |only man/rmytarget-package.Rd | 4 33 files changed, 1147 insertions(+), 587 deletions(-)
Title: Interactive Bipartite Graphs
Description: Generates interactive bipartite graphs using the D3 library.
Designed for use with the 'bipartite' analysis package.
Sources open source 'viz-js' library
Adapted from examples at <https://bl.ocks.org/NPashaP> (released under GPL-3).
Author: Chris Terry [aut, cre]
Maintainer: Chris Terry <christerry3@btinternet.com>
Diff between bipartiteD3 versions 0.2.0 dated 2019-03-28 and 0.3.0 dated 2021-10-20
DESCRIPTION | 11 MD5 | 34 NEWS.md | 6 R/BP_JS_Writer.R | 61 - R/LoadVisJS.R | 4 R/bipartiteD3-package.r | 3 R/bipartite_D3.r | 3 build/vignette.rds |binary inst/doc/bipartiteD3_Intro.R | 35 inst/doc/bipartiteD3_Intro.Rmd | 11 inst/doc/bipartiteD3_Intro.html | 2196 +++------------------------------------- man/Array2DF.Rd | 8 man/BP_JS_Writer.Rd | 44 man/List2DF.Rd | 8 man/Matrix2DF.Rd | 8 man/bipartiteD3.Rd | 5 man/bipartite_D3.Rd | 40 vignettes/bipartiteD3_Intro.Rmd | 11 18 files changed, 334 insertions(+), 2154 deletions(-)