Title: Moran Eigenvector-Based Scalable Spatial Additive Mixed Models
Description: Functions for estimating spatial additive mixed models and other spatial regression models for Gaussian and non-Gaussian data. Moran eigenvectors are used to an approximate Gaussian process modeling which is interpretable in terms of the Moran coefficient. The GP is used for modeling the spatial processes in residuals and regression coefficients. For details see Murakami (2020) <arXiv:1703.04467>.
Author: Daisuke Murakami <dmuraka@ism.ac.jp>
Maintainer: Daisuke Murakami <dmuraka@ism.ac.jp>
Diff between spmoran versions 0.2.0-2 dated 2020-08-03 and 0.2.1 dated 2021-01-10
spmoran-0.2.0-2/spmoran/inst/doc/vignettes.pdf |only spmoran-0.2.0-2/spmoran/inst/doc/vignettes.pdf.asis |only spmoran-0.2.0-2/spmoran/vignettes/vignettes.pdf.asis |only spmoran-0.2.1/spmoran/DESCRIPTION | 16 spmoran-0.2.1/spmoran/MD5 | 55 spmoran-0.2.1/spmoran/NAMESPACE | 4 spmoran-0.2.1/spmoran/R/besf.R | 10 spmoran-0.2.1/spmoran/R/besf_vc.R | 13 spmoran-0.2.1/spmoran/R/coef_marginal.R |only spmoran-0.2.1/spmoran/R/coef_marginal_vc.R |only spmoran-0.2.1/spmoran/R/lsem.R | 8 spmoran-0.2.1/spmoran/R/lslm.R | 9 spmoran-0.2.1/spmoran/R/meigen.R | 11 spmoran-0.2.1/spmoran/R/meigen0.R | 29 spmoran-0.2.1/spmoran/R/meigen_f.R | 5 spmoran-0.2.1/spmoran/R/predict0.R | 425 ++ spmoran-0.2.1/spmoran/R/predict0_vc.R | 442 ++ spmoran-0.2.1/spmoran/R/resf.R | 33 spmoran-0.2.1/spmoran/R/resf_vc.R | 3378 +++++++++++-------- spmoran-0.2.1/spmoran/build/vignette.rds |binary spmoran-0.2.1/spmoran/inst/doc/boston_sample.pdf |binary spmoran-0.2.1/spmoran/man/besf.Rd | 2 spmoran-0.2.1/spmoran/man/besf_vc.Rd | 2 spmoran-0.2.1/spmoran/man/coef_marginal.Rd |only spmoran-0.2.1/spmoran/man/coef_marginal_vc.Rd |only spmoran-0.2.1/spmoran/man/esf.Rd | 2 spmoran-0.2.1/spmoran/man/lsem.Rd | 1 spmoran-0.2.1/spmoran/man/lslm.Rd | 1 spmoran-0.2.1/spmoran/man/predict0.Rd | 4 spmoran-0.2.1/spmoran/man/predict0_vc.Rd | 2 spmoran-0.2.1/spmoran/man/resf.Rd | 74 spmoran-0.2.1/spmoran/man/resf_vc.Rd | 86 32 files changed, 3194 insertions(+), 1418 deletions(-)
Title: Maximum Likelihood Shrinkage using Generalized Ridge or Least
Angle Regression Methods
Description: Functions are provided to calculate and display ridge TRACE diagnostics for a
wide variety of alternative shrinkage Paths. While all methods focus on Maximum Likelihood
estimation of unknown true effects under Normal-distribution theory, some estimates are
modified to be Unbiased or to have "Correct Range" when estimating either [1] the noncentrality
of the F-ratio for testing that true Beta coefficients are Zeros or [2] the "relative" MSE
Risk (i.e. MSE divided by true sigma-square, where the "relative" variance of OLS is known.)
The unr.ridge() function implements the "Unrestricted Path" introduced in Obenchain (2020)
<arXiv:2005.14291>. This "new" p-parameter Shrinkage-Path is more efficient than the Paths
used by qm.ridge(), aug.lars() and uc.lars(). Functions unr.aug() and unr.biv() augment the
calculations made by unr.ridge() to provide plots of the bivariate confidence ellipses
corresponding to any of the p*(p-1) possible pairs of shrunken regression coefficients.
Author: Bob Obenchain
Maintainer: Bob Obenchain <wizbob@att.net>
Diff between RXshrink versions 1.5 dated 2020-12-16 and 1.6 dated 2021-01-10
RXshrink-1.5/RXshrink/R/MLboot.R |only RXshrink-1.5/RXshrink/R/MLcalc.R |only RXshrink-1.5/RXshrink/R/MLtrue.R |only RXshrink-1.6/RXshrink/DESCRIPTION | 36 - RXshrink-1.6/RXshrink/MD5 | 67 +- RXshrink-1.6/RXshrink/NAMESPACE | 101 ++-- RXshrink-1.6/RXshrink/R/MLfuns.R |only RXshrink-1.6/RXshrink/R/RXpredict.R | 231 ++++----- RXshrink-1.6/RXshrink/R/YonX.R | 301 +++++------- RXshrink-1.6/RXshrink/R/aug.lars.R | 59 +- RXshrink-1.6/RXshrink/R/correct.signs.R | 83 +-- RXshrink-1.6/RXshrink/R/internal.R |only RXshrink-1.6/RXshrink/R/qm.ridge.R | 605 +++++++++++++------------- RXshrink-1.6/RXshrink/R/uc.lars.R | 505 ++++++++++----------- RXshrink-1.6/RXshrink/R/unr.aug.R | 245 +++++----- RXshrink-1.6/RXshrink/R/unr.ridge.R | 516 +++++++++------------- RXshrink-1.6/RXshrink/data/longley2.rda |binary RXshrink-1.6/RXshrink/data/mpg.rda |binary RXshrink-1.6/RXshrink/demo/haldport.R | 39 - RXshrink-1.6/RXshrink/demo/longley2.R | 26 - RXshrink-1.6/RXshrink/demo/mpg.R | 8 RXshrink-1.6/RXshrink/demo/tycobb.R | 28 - RXshrink-1.6/RXshrink/man/MLboot.Rd | 4 RXshrink-1.6/RXshrink/man/MLcalc.Rd | 11 RXshrink-1.6/RXshrink/man/MLtrue.Rd | 2 RXshrink-1.6/RXshrink/man/RXpredict.Rd | 4 RXshrink-1.6/RXshrink/man/RXshrink-package.Rd | 40 - RXshrink-1.6/RXshrink/man/YonX.Rd | 55 +- RXshrink-1.6/RXshrink/man/aug.lars.Rd | 8 RXshrink-1.6/RXshrink/man/correct.signs.Rd | 8 RXshrink-1.6/RXshrink/man/internal.Rd | 10 RXshrink-1.6/RXshrink/man/longley2.Rd | 13 RXshrink-1.6/RXshrink/man/mpg.Rd | 20 RXshrink-1.6/RXshrink/man/plot.YonX.Rd | 43 + RXshrink-1.6/RXshrink/man/qm.ridge.Rd | 7 RXshrink-1.6/RXshrink/man/uc.lars.Rd | 4 RXshrink-1.6/RXshrink/man/unr.ridge.Rd | 44 - 37 files changed, 1521 insertions(+), 1602 deletions(-)
Title: Quantile Regression
Description: Estimation and inference methods for models of conditional quantiles:
Linear and nonlinear parametric and non-parametric (total variation penalized) models
for conditional quantiles of a univariate response and several methods for handling
censored survival data. Portfolio selection methods based on expected shortfall
risk are also now included.
Author: Roger Koenker [cre, aut],
Stephen Portnoy [ctb] (Contributions to Censored QR code),
Pin Tian Ng [ctb] (Contributions to Sparse QR code),
Blaise Melly [ctb] (Contributions to preprocessing code),
Achim Zeileis [ctb] (Contributions to dynrq code essentially identical
to his dynlm code),
Philip Grosjean [ctb] (Contributions to nlrq code),
Cleve Moler [ctb] (author of several linpack routines),
Victor Chernozhukov [ctb] (contributions to extreme value inference
code),
Ivan Fernandez-Val [ctb] (contributions to extreme value inference
code),
Brian D Ripley [trl, ctb] (Initial (2001) R port from S (to my
everlasting shame -- how could I have been so slow to adopt R!) and
for numerous other suggestions and useful advice)
Maintainer: Roger Koenker <rkoenker@illinois.edu>
Diff between quantreg versions 5.75 dated 2020-10-27 and 5.82 dated 2021-01-10
quantreg-5.75/quantreg/src/ratfor/akj.r |only quantreg-5.75/quantreg/src/ratfor/kuantile.r |only quantreg-5.75/quantreg/src/ratfor/rq0.f |only quantreg-5.75/quantreg/src/ratfor/rqbr.f |only quantreg-5.75/quantreg/src/ratfor/sboot.f |only quantreg-5.82/quantreg/DESCRIPTION | 6 quantreg-5.82/quantreg/MD5 | 78 +++++--- quantreg-5.82/quantreg/NAMESPACE | 2 quantreg-5.82/quantreg/R/boot.R | 43 ++++ quantreg-5.82/quantreg/R/kuantile.R | 8 quantreg-5.82/quantreg/R/quantreg.R | 129 ++++++++++++-- quantreg-5.82/quantreg/R/rqss.R | 2 quantreg-5.82/quantreg/inst/ChangeLog | 65 +++++++ quantreg-5.82/quantreg/man/boot.rq.Rd | 11 - quantreg-5.82/quantreg/man/boot.rq.pwxy.Rd |only quantreg-5.82/quantreg/man/q489.Rd |only quantreg-5.82/quantreg/man/rq.Rd | 13 + quantreg-5.82/quantreg/man/rq.fit.conquer.Rd | 7 quantreg-5.82/quantreg/man/rq.fit.pfnb.Rd |only quantreg-5.82/quantreg/man/rq.fit.ppro.Rd | 4 quantreg-5.82/quantreg/man/rq.fit.qfnb.Rd |only quantreg-5.82/quantreg/src/akj.f |only quantreg-5.82/quantreg/src/boot.f | 14 + quantreg-5.82/quantreg/src/brute.f | 3 quantreg-5.82/quantreg/src/combos.f | 2 quantreg-5.82/quantreg/src/crqfnb.f | 4 quantreg-5.82/quantreg/src/frand.c |only quantreg-5.82/quantreg/src/grexp.f |only quantreg-5.82/quantreg/src/kuantile.f |only quantreg-5.82/quantreg/src/kuantiles.f | 2 quantreg-5.82/quantreg/src/penalty.f | 2 quantreg-5.82/quantreg/src/pfnb.f |only quantreg-5.82/quantreg/src/powell.f | 4 quantreg-5.82/quantreg/src/profnb.f |only quantreg-5.82/quantreg/src/pwxy.f |only quantreg-5.82/quantreg/src/qfnb.f |only quantreg-5.82/quantreg/src/qselect.f |only quantreg-5.82/quantreg/src/quantreg_init.c | 10 + quantreg-5.82/quantreg/src/ratfor/README | 14 + quantreg-5.82/quantreg/src/ratfor/grexp.r |only quantreg-5.82/quantreg/src/ratfor/kuantiles.r |only quantreg-5.82/quantreg/src/ratfor/pfnb.r |only quantreg-5.82/quantreg/src/ratfor/pwxy.r |only quantreg-5.82/quantreg/src/ratfor/qfnb.r |only quantreg-5.82/quantreg/src/ratfor/qselect.r |only quantreg-5.82/quantreg/src/ratfor/sakj.r |only quantreg-5.82/quantreg/src/rls.f | 10 - quantreg-5.82/quantreg/src/rqfn.f | 2 quantreg-5.82/quantreg/src/rqfnb.f | 2 quantreg-5.82/quantreg/src/rqfnc.f | 2 quantreg-5.82/quantreg/src/rqs.f | 2 quantreg-5.82/quantreg/src/sakj.f | 230 +++++++++++--------------- quantreg-5.82/quantreg/src/spwy.f |only 53 files changed, 454 insertions(+), 217 deletions(-)
Title: Odds Ratios, Contingency Table, and Model Significance from a
Generalized Linear Model Object
Description: Computes odds ratios and 95% confidence intervals from a generalized linear model object. It also computes model significance with the chi-squared statistic and p-value and it computes model fit using a contingency table to determine the percent of observations for which the model correctly predicts the value of the outcome. Calculates model sensitivity and specificity.
Author: Jenine Harris [aut, cre]
Maintainer: Jenine Harris <harrisj@wustl.edu>
Diff between odds.n.ends versions 0.1.2 dated 2021-01-06 and 0.1.3 dated 2021-01-10
DESCRIPTION | 8 +++++--- MD5 | 9 +++++++-- R/or_function.R | 8 ++++---- build |only inst |only vignettes |only 6 files changed, 16 insertions(+), 9 deletions(-)
Title: Clustering and Visualizing Distance Matrices
Description: Defines the classes used to explore, cluster and
visualize distance matrices, especially those arising from binary data.
Author: Kevin R. Coombes, Caitlin E. Coombes
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between Mercator versions 0.11.5 dated 2020-11-12 and 0.99.0 dated 2021-01-10
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NAMESPACE | 2 +- R/02-binaryMatrix.R | 5 +++-- inst/doc/mercVis.html | 8 ++++---- inst/doc/mercator.R | 4 ++-- inst/doc/mercator.Rmd | 19 ++++++++++--------- inst/doc/mercator.html | 23 +++++++++++------------ man/removeDuplicateFeatures.Rd | 30 +++++++++++++++++++----------- tests/test-02binmat.Rout.save | 16 ++++++++++------ tests/test-03thresh.Rout.save | 17 +++++++++++------ vignettes/mercator.Rmd | 19 ++++++++++--------- 12 files changed, 96 insertions(+), 77 deletions(-)
Title: Query Cache for HTTP Clients
Description: In order to improve performance for HTTP API clients, 'httpcache'
provides simple tools for caching and invalidating cache. It includes the
HTTP verb functions GET, PUT, PATCH, POST, and DELETE, which are drop-in
replacements for those in the 'httr' package. These functions are cache-aware
and provide default settings for cache invalidation suitable for RESTful
APIs; the package also enables custom cache-management strategies.
Finally, 'httpcache' includes a basic logging framework to facilitate the
measurement of HTTP request time and cache performance.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal.p.richardson@gmail.com>
Diff between httpcache versions 1.1.0 dated 2017-10-17 and 1.2.0 dated 2021-01-10
DESCRIPTION | 16 +++++----- MD5 | 48 ++++++++++++++++--------------- R/autocache.R |only R/cache.R | 5 +-- R/load-cache.R | 2 - R/log.R | 2 - build/vignette.rds |binary inst/WORDLIST |only inst/doc/httpcache.R | 6 +-- inst/doc/httpcache.Rmd | 40 ++++++++++++++++--------- inst/doc/httpcache.html | 45 +++++++++++++++-------------- man/buildCacheKey.Rd | 2 - man/cache-management.Rd | 2 - man/cached-http-verbs.Rd | 4 -- man/cachedPOST.Rd | 2 - man/loadLogfile.Rd | 2 - man/saveCache.Rd | 2 - man/startLog.Rd | 2 - tests/spelling.R |only tests/testthat/test-autocache.R |only tests/testthat/test-cache-query-params.R | 4 +- tests/testthat/test-cache.R | 16 +++++----- tests/testthat/test-cached-post.R | 2 - tests/testthat/test-drop-cache.R | 2 - tests/testthat/test-load-cache.R | 2 - tests/testthat/test-logging.R | 6 +-- vignettes/httpcache.Rmd | 40 ++++++++++++++++--------- 27 files changed, 139 insertions(+), 113 deletions(-)
Title: Graceful 'ggplot'-Based Graphics and Other Functions for GAMs
Fitted Using 'mgcv'
Description: Graceful 'ggplot'-based graphics and utility functions for working with generalized additive models (GAMs) fitted using the 'mgcv' package. Provides a reimplementation of the plot() method for GAMs that 'mgcv' provides, as well as 'tidyverse' compatible representations of estimated smooths.
Author: Gavin L. Simpson [aut, cre] (<https://orcid.org/0000-0002-9084-8413>),
Henrik Singmann [ctb] (<https://orcid.org/0000-0002-4842-3657>)
Maintainer: Gavin L. Simpson <ucfagls@gmail.com>
Diff between gratia versions 0.4.1 dated 2020-05-30 and 0.5.0 dated 2021-01-10
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Title: Statistical Functions for the Delaporte Distribution
Description: Provides probability mass, distribution, quantile, random-variate
generation, and method-of-moments parameter-estimation functions for the
Delaporte distribution with parameterization based on Vose (2008)
<isbn:9780470512845>. The Delaporte is a discrete probability distribution
which can be considered the convolution of a negative binomial distribution
with a Poisson distribution. Alternatively, it can be considered a counting
distribution with both Poisson and negative binomial components. It has been
studied in actuarial science as a frequency distribution which has more
variability than the Poisson, but less than the negative binomial.
Author: Avraham Adler [aut, cph, cre] (<https://orcid.org/0000-0002-3039-0703>)
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between Delaporte versions 8.0.0 dated 2021-01-05 and 8.0.1 dated 2021-01-10
DESCRIPTION | 8 +- MD5 | 30 +++++----- R/Delaporte.R | 66 ++++++++++++++---------- README.md | 7 +- build/partial.rdb |binary inst/CITATION | 4 - inst/NEWS.Rd | 98 +++++++++++++++++++++-------------- man/Delaporte-internal.Rd | 3 - src/Makevars | 7 +- src/delaporte.f95 | 62 ++++++++++------------ src/utils_and_wrappers.c | 2 tests/testthat/test-ddelap.r | 60 +++++++++++++-------- tests/testthat/test-package.r | 2 tests/testthat/test-pdelap.r | 74 ++++++++++++++------------- tests/testthat/test-qdelap.r | 115 ++++++++++++++++++++++++++++++------------ tests/testthat/test-rdelap.r | 45 ++++++++-------- 16 files changed, 341 insertions(+), 242 deletions(-)
Title: A Versatile Toolkit for Copy Number Variation Relationship Data
Analysis and Visualization
Description: Provides the ability to create interaction maps, discover CNV map domains (edges), gene annotate interactions, and create interactive visualizations of these CNV interaction maps.
Author: James Dalgeish, Yonghong Wang, Jack Zhu, Paul Meltzer
Maintainer: James Dalgleish <james.dalgleish@nih.gov>
Diff between CNVScope versions 3.3.9 dated 2020-12-15 and 3.5.6 dated 2021-01-10
DESCRIPTION | 14 MD5 | 78 NAMESPACE | 1 NEWS.md | 270 +-- R/CNVScopeserver.R | 2632 +++++++++++++++---------------- R/GRanges_to_underscored_pos.R | 34 R/calcCNVKernelProbDist.R | 306 +-- R/calcVecLMs.R | 108 - R/createChromosomalMatrixSet.R | 102 - R/downsample_genomic_matrix.R | 106 - R/formSampleMatrixFromRawGDCData.R | 634 +++---- R/freadGDCfile.R | 144 - R/getAsymmetricBlockIndices.R | 316 +-- R/getBlockAverageMatrixFromBreakpoints.R | 236 +- R/getInterchromosomalInteractivePlot.R | 146 - R/importBreakpointBed.R | 62 R/postProcessLinRegMatrix.R | 98 - R/rebinGenomicInteractions.R | 160 - R/runCNVScopeShiny.R | 416 ++-- R/signedRescale.R | 192 +- R/underscored_pos_to_GRanges.R | 54 R/writeAsymmetricMeltedMatrixToDisk.R | 388 ++-- R/writeMeltedChromosomalMatrixToDisk.R | 366 ++-- build/vignette.rds |binary inst/doc/additonal_examples.R | 442 ++--- inst/doc/additonal_examples.Rmd | 622 +++---- inst/doc/additonal_examples.html | 1162 +++++-------- inst/doc/create_input_matrix.R | 96 - inst/doc/create_input_matrix.Rmd | 300 +-- inst/doc/create_input_matrix.html | 824 +++------ inst/doc/create_output_matrix.R | 147 - inst/doc/create_output_matrix.Rmd | 207 +- inst/doc/create_output_matrix.html | 691 ++------ inst/doc/power_analysis.R | 42 inst/doc/power_analysis.Rmd | 12 inst/doc/power_analysis.html | 782 +++------ vignettes/additonal_examples.Rmd | 622 +++---- vignettes/create_input_matrix.Rmd | 300 +-- vignettes/create_output_matrix.Rmd | 207 +- vignettes/power_analysis.Rmd | 12 40 files changed, 6263 insertions(+), 7068 deletions(-)
Title: Stability Assessment of Statistical Learning Methods
Description: Graphical and computational methods that can be used to assess the
stability of results from supervised statistical learning.
Author: Michel Philipp [aut, cre],
Carolin Strobl [aut],
Achim Zeileis [aut] (<https://orcid.org/0000-0003-0918-3766>),
Thomas Rusch [aut],
Kurt Hornik [aut] (<https://orcid.org/0000-0003-4198-9911>),
Lennart Schneider [aut] (<https://orcid.org/0000-0003-4152-5308>)
Maintainer: Michel Philipp <michel.philipp.mp@gmail.com>
Diff between stablelearner versions 0.1-2 dated 2020-04-17 and 0.1-3 dated 2021-01-10
stablelearner-0.1-2/stablelearner/NEWS |only stablelearner-0.1-3/stablelearner/DESCRIPTION | 12 stablelearner-0.1-3/stablelearner/MD5 | 26 stablelearner-0.1-3/stablelearner/NEWS.md |only stablelearner-0.1-3/stablelearner/R/sampler.R | 8 stablelearner-0.1-3/stablelearner/R/stablelearner.R | 3 stablelearner-0.1-3/stablelearner/R/stabletree.R | 2 stablelearner-0.1-3/stablelearner/build/vignette.rds |binary stablelearner-0.1-3/stablelearner/inst/doc/forests.R | 69 - stablelearner-0.1-3/stablelearner/inst/doc/forests.Rmd | 281 ++--- stablelearner-0.1-3/stablelearner/inst/doc/forests.html | 875 ++++++++++------ stablelearner-0.1-3/stablelearner/man/stabletree.Rd | 2 stablelearner-0.1-3/stablelearner/man/titanic.Rd | 10 stablelearner-0.1-3/stablelearner/vignettes/forests.Rmd | 281 ++--- stablelearner-0.1-3/stablelearner/vignettes/forests.bib | 11 15 files changed, 991 insertions(+), 589 deletions(-)
Title: A Client for the 'Pivotal Tracker' API
Description: 'Pivotal Tracker' <https://www.pivotaltracker.com> is a project
management software-as-a-service that provides a REST API. This package
provides an R interface to that API, allowing you to query it and work with
its responses.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal.p.richardson@gmail.com>
Diff between pivotaltrackR versions 0.1.0 dated 2018-01-19 and 0.2.0 dated 2021-01-10
pivotaltrackR-0.1.0/pivotaltrackR/inst/doc/pivotaltrackR.md |only pivotaltrackR-0.2.0/pivotaltrackR/DESCRIPTION | 15 pivotaltrackR-0.2.0/pivotaltrackR/MD5 | 31 pivotaltrackR-0.2.0/pivotaltrackR/NAMESPACE | 4 pivotaltrackR-0.2.0/pivotaltrackR/NEWS.md | 8 pivotaltrackR-0.2.0/pivotaltrackR/R/labels.R |only pivotaltrackR-0.2.0/pivotaltrackR/R/stories.R | 18 pivotaltrackR-0.2.0/pivotaltrackR/R/story.R | 4 pivotaltrackR-0.2.0/pivotaltrackR/README.md | 6 pivotaltrackR-0.2.0/pivotaltrackR/build/vignette.rds |binary pivotaltrackR-0.2.0/pivotaltrackR/inst/doc/pivotaltrackR.R | 26 pivotaltrackR-0.2.0/pivotaltrackR/inst/doc/pivotaltrackR.html | 371 +++++++--- pivotaltrackR-0.2.0/pivotaltrackR/inst/httptest/redact.R | 1 pivotaltrackR-0.2.0/pivotaltrackR/man/addLabel.Rd |only pivotaltrackR-0.2.0/pivotaltrackR/man/labels.Rd |only pivotaltrackR-0.2.0/pivotaltrackR/tests/testthat/test-api.R | 2 pivotaltrackR-0.2.0/pivotaltrackR/tests/testthat/test-labels.R |only pivotaltrackR-0.2.0/pivotaltrackR/tests/testthat/test-stories.R | 9 pivotaltrackR-0.2.0/pivotaltrackR/tests/testthat/test-story.R | 2 19 files changed, 347 insertions(+), 150 deletions(-)
Title: A Fully Featured Logging Framework
Description: A flexible, feature-rich yet light-weight logging
framework based on 'R6' classes. It supports hierarchical loggers,
custom log levels, arbitrary data fields in log events, logging to
plaintext, 'JSON', (rotating) files, memory buffers. For extra
appenders that support logging to databases, email and push
notifications see the the package lgr.app.
Author: Stefan Fleck [aut, cre] (<https://orcid.org/0000-0003-3344-9851>)
Maintainer: Stefan Fleck <stefan.b.fleck@gmail.com>
Diff between lgr versions 0.4.1 dated 2020-10-20 and 0.4.2 dated 2021-01-10
lgr-0.4.1/lgr/inst/benchmarks/benchmarks.html |only lgr-0.4.2/lgr/DESCRIPTION | 8 lgr-0.4.2/lgr/MD5 | 40 lgr-0.4.2/lgr/NEWS.md | 78 - lgr-0.4.2/lgr/R/Appender.R | 47 lgr-0.4.2/lgr/R/LogEvent.R | 1 lgr-0.4.2/lgr/R/Logger.R | 19 lgr-0.4.2/lgr/R/default_functions.R | 28 lgr-0.4.2/lgr/README.md | 32 lgr-0.4.2/lgr/build/vignette.rds |binary lgr-0.4.2/lgr/inst/doc/lgr.Rmd | 4 lgr-0.4.2/lgr/inst/doc/lgr.html | 1148 ++++++--------- lgr-0.4.2/lgr/man/AppenderFileRotating.Rd | 10 lgr-0.4.2/lgr/man/AppenderFileRotatingDate.Rd | 18 lgr-0.4.2/lgr/man/AppenderFileRotatingTime.Rd | 12 lgr-0.4.2/lgr/man/LayoutFormat.Rd | 1 lgr-0.4.2/lgr/man/print.LogEvent.Rd | 1 lgr-0.4.2/lgr/tests/testthat/test_AppenderFileRotating.R | 49 lgr-0.4.2/lgr/tests/testthat/test_Logger.R | 36 lgr-0.4.2/lgr/tests/testthat/test_default_functions.R |only lgr-0.4.2/lgr/tests/testthat/test_parallel.R | 2 lgr-0.4.2/lgr/vignettes/lgr.Rmd | 4 22 files changed, 781 insertions(+), 757 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 3.6 dated 2020-12-17 and 3.6.1 dated 2021-01-10
DESCRIPTION | 8 +++--- MD5 | 18 +++++++------- R/IsoplotR.R | 12 +++++---- build/CRAN.md | 6 +++- build/docker.md | 32 ++++++++++++++++++++++++-- build/git.md | 3 +- build/podman.md | 18 ++++++++++++-- inst/www/locales/en/contextual_help.json | 2 - inst/www/locales/zh_Hans/contextual_help.json | 2 - man/daemon.Rd | 3 +- 10 files changed, 75 insertions(+), 29 deletions(-)
Title: The 2019 Novel Coronavirus COVID-19 (2019-nCoV) Dataset
Description: Provides a daily summary of the Coronavirus (COVID-19) cases by state/province. Data source: Johns Hopkins University Center for Systems Science and Engineering (JHU CCSE) Coronavirus <https://systems.jhu.edu/research/public-health/ncov/>.
Author: Rami Krispin [aut, cre],
Jarrett Byrnes [aut] (<https://orcid.org/0000-0002-9791-9472>)
Maintainer: Rami Krispin <rami.krispin@gmail.com>
Diff between coronavirus versions 0.3.0 dated 2020-08-03 and 0.3.1 dated 2021-01-10
coronavirus-0.3.0/coronavirus/R/refresh_coronavirus.R |only coronavirus-0.3.1/coronavirus/DESCRIPTION | 8 coronavirus-0.3.1/coronavirus/MD5 | 29 - coronavirus-0.3.1/coronavirus/NEWS.md | 7 coronavirus-0.3.1/coronavirus/R/refresh_coronvirus.R |only coronavirus-0.3.1/coronavirus/README.md | 242 +++++----- coronavirus-0.3.1/coronavirus/data/coronavirus.rda |binary coronavirus-0.3.1/coronavirus/inst/doc/covid19R.Rmd | 1 coronavirus-0.3.1/coronavirus/inst/doc/covid19R.html | 110 +++- coronavirus-0.3.1/coronavirus/inst/doc/update_dataset_function.html | 98 +++- coronavirus-0.3.1/coronavirus/man/figures/dashboard.png |only coronavirus-0.3.1/coronavirus/man/figures/total_cases.png |binary coronavirus-0.3.1/coronavirus/man/figures/total_cases.svg |only coronavirus-0.3.1/coronavirus/man/figures/treemap_conf.png |binary coronavirus-0.3.1/coronavirus/man/figures/treemap_conf.svg |only coronavirus-0.3.1/coronavirus/man/get_info_coronavirus.Rd | 2 coronavirus-0.3.1/coronavirus/man/refresh_coronavirus_jhu.Rd | 2 coronavirus-0.3.1/coronavirus/vignettes/covid19R.Rmd | 1 18 files changed, 312 insertions(+), 188 deletions(-)
Title: Provide Tours of 'Shiny' Applications
Description: Provide step by step guided tours of 'Shiny' applications.
Author: John Coene [aut, cre] (<https://orcid.org/0000-0002-6637-4107>),
Etienne Bacher [ctb]
Maintainer: John Coene <jcoenep@gmail.com>
Diff between cicerone versions 1.0.3 dated 2020-08-04 and 1.0.4 dated 2021-01-10
DESCRIPTION | 19 +++-- MD5 | 17 ++--- NEWS.md | 7 ++ R/dependencies.R | 9 ++ R/steps.R | 39 +++++++++-- README.md | 5 + inst/cicerone/cicerone.js | 139 +++++++++++++++++++++++------------------ inst/cicerone/custom.css |only inst/driver/css/driver.min.css | 2 man/Cicerone.Rd | 19 +++++ 10 files changed, 168 insertions(+), 88 deletions(-)
Title: Fit, Predict and Plot 2D Gaussians
Description: Functions to fit two-dimensional Gaussian functions, predict values from
fits, and produce plots of predicted data via either 'ggplot2' or base R
plotting.
Author: Vikram B. Baliga [aut, cre, cph]
(<https://orcid.org/0000-0002-9367-8974>)
Maintainer: Vikram B. Baliga <vbaliga87@gmail.com>
Diff between gaussplotR versions 0.2.0 dated 2020-11-28 and 0.2.3 dated 2021-01-10
gaussplotR-0.2.0/gaussplotR/R/compute_gaussian_volume.R |only gaussplotR-0.2.3/gaussplotR/DESCRIPTION | 13 gaussplotR-0.2.3/gaussplotR/MD5 | 60 gaussplotR-0.2.3/gaussplotR/NAMESPACE | 4 gaussplotR-0.2.3/gaussplotR/NEWS.md | 52 gaussplotR-0.2.3/gaussplotR/R/autofit_gaussian_2D.R |only gaussplotR-0.2.3/gaussplotR/R/characterize_gaussian_fits.R |only gaussplotR-0.2.3/gaussplotR/R/compare_gaussian_fits.R |only gaussplotR-0.2.3/gaussplotR/R/fit_gaussian_2D.R | 1419 +++++++--- gaussplotR-0.2.3/gaussplotR/R/get_volume_gaussian_2D.R |only gaussplotR-0.2.3/gaussplotR/R/ggplot_gaussian_2D.R | 170 - gaussplotR-0.2.3/gaussplotR/R/predict_gaussian_2D.R | 423 ++ gaussplotR-0.2.3/gaussplotR/R/rgl_gaussian_2D.R |only gaussplotR-0.2.3/gaussplotR/README.md | 335 +- gaussplotR-0.2.3/gaussplotR/build |only gaussplotR-0.2.3/gaussplotR/inst |only gaussplotR-0.2.3/gaussplotR/man/autofit_gaussian_2D.Rd |only gaussplotR-0.2.3/gaussplotR/man/characterize_gaussian_fits.Rd |only gaussplotR-0.2.3/gaussplotR/man/compare_gaussian_fits.Rd |only gaussplotR-0.2.3/gaussplotR/man/figures/README-example-1.png |binary gaussplotR-0.2.3/gaussplotR/man/figures/README-example-2.png |binary gaussplotR-0.2.3/gaussplotR/man/figures/README-example-3.png |binary gaussplotR-0.2.3/gaussplotR/man/fit_gaussian_2D.Rd | 121 gaussplotR-0.2.3/gaussplotR/man/get_volume_gaussian_2D.Rd | 13 gaussplotR-0.2.3/gaussplotR/man/ggplot_gaussian_2D.Rd | 33 gaussplotR-0.2.3/gaussplotR/man/predict_gaussian_2D.Rd | 50 gaussplotR-0.2.3/gaussplotR/man/rgl_gaussian_2D.Rd |only gaussplotR-0.2.3/gaussplotR/tests |only gaussplotR-0.2.3/gaussplotR/vignettes |only 29 files changed, 1875 insertions(+), 818 deletions(-)
Title: Hemodynamic Indexes Calculated from Clinical Monitoring
Description: Every research team have their own script for calculation of hemodynamic indexes.
This package makes it possible to insert a long-format dataframe, and add both
periods of interest (trigger-periods), and delete artifacts with deleter-files.
Author: Markus Harboe Olsen [cre, aut],
Christian Riberholt [aut]
Maintainer: Markus Harboe Olsen <oel@oelfam.com>
Diff between clinmon versions 0.2.0 dated 2020-09-29 and 0.5.5 dated 2021-01-10
clinmon-0.2.0/clinmon/R/CO.R |only clinmon-0.2.0/clinmon/R/CPPopt.R |only clinmon-0.2.0/clinmon/R/CVRi.R |only clinmon-0.2.0/clinmon/R/Dx.R |only clinmon-0.2.0/clinmon/R/Mx.R |only clinmon-0.2.0/clinmon/R/PI.R |only clinmon-0.2.0/clinmon/R/PRx.R |only clinmon-0.2.0/clinmon/R/PWA.R |only clinmon-0.2.0/clinmon/R/RI.R |only clinmon-0.2.0/clinmon/R/Sx.R |only clinmon-0.2.0/clinmon/R/TFA.R |only clinmon-0.2.0/clinmon/R/z_cor.R |only clinmon-0.2.0/clinmon/R/z_cor_functions.R |only clinmon-0.2.0/clinmon/R/z_functions_co.R |only clinmon-0.2.0/clinmon/R/z_functions_cvri.R |only clinmon-0.2.0/clinmon/R/z_functions_pi.R |only clinmon-0.2.0/clinmon/R/z_functions_pwa.R |only clinmon-0.2.0/clinmon/R/z_functions_ri.R |only clinmon-0.2.0/clinmon/R/z_initial.R |only clinmon-0.2.0/clinmon/man/CO.Rd |only clinmon-0.2.0/clinmon/man/CVRi.Rd |only clinmon-0.2.0/clinmon/man/Dx.Rd |only clinmon-0.2.0/clinmon/man/Mx.Rd |only clinmon-0.2.0/clinmon/man/PI.Rd |only clinmon-0.2.0/clinmon/man/PRx.Rd |only clinmon-0.2.0/clinmon/man/PWA.Rd |only clinmon-0.2.0/clinmon/man/RI.Rd |only clinmon-0.2.0/clinmon/man/Sx.Rd |only clinmon-0.5.5/clinmon/DESCRIPTION | 12 ++++---- clinmon-0.5.5/clinmon/MD5 | 42 +++++++---------------------- clinmon-0.5.5/clinmon/NAMESPACE | 15 +--------- clinmon-0.5.5/clinmon/NEWS.md | 12 ++++++++ clinmon-0.5.5/clinmon/R/clinmon.R |only clinmon-0.5.5/clinmon/R/clinmon_helper.R |only clinmon-0.5.5/clinmon/R/testdata.R |only clinmon-0.5.5/clinmon/data |only clinmon-0.5.5/clinmon/man/clinmon.Rd |only clinmon-0.5.5/clinmon/man/df.data10.Rd |only clinmon-0.5.5/clinmon/man/df.data1000.Rd |only clinmon-0.5.5/clinmon/man/df.deleter.Rd |only 40 files changed, 31 insertions(+), 50 deletions(-)
Title: Statistical Methods for Interval-Censored Data
Description: Functions that provide statistical methods for interval-censored (grouped) data. The package supports the estimation of linear and linear mixed regression models with interval-censored dependent variables. Parameter estimates are obtained by a stochastic expectation maximization algorithm. Furthermore, the package enables the direct (without covariates) estimation of statistical indicators from interval-censored data via an iterative kernel density algorithm. Survey and Organisation for Economic Co-operation and Development (OECD) weights can be included into the direct estimation (see, Walter, P. (2019) <doi:10.17169/refubium-1621>).
Author: Paul Walter
Maintainer: Paul Walter <paul.walter@fu-berlin.de>
Diff between smicd versions 1.1.1 dated 2020-07-18 and 1.1.2 dated 2021-01-10
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/plot.kdeAlgo.R | 4 ++-- R/plot.sem.R | 6 +++--- inst/doc/vignetteSmicd.pdf |binary 6 files changed, 17 insertions(+), 13 deletions(-)
Title: 'Serpstat' API Wrapper
Description: The primary goal of 'Serpstat' API <https://serpstat.com/api/>
is to reduce manual SEO (search engine optimization) and PPC (pay-per-click)
tasks. You can automate your keywords research or competitors analysis
with this API wrapper.
Author: Alex Danilin [aut, cre]
Maintainer: Alex Danilin <alexnikdanilin@gmail.com>
Diff between serpstatr versions 0.0.2 dated 2020-05-15 and 0.1.0 dated 2021-01-10
DESCRIPTION | 8 - MD5 | 39 ++++--- NAMESPACE | 4 NEWS.md | 11 ++ R/rank_tracker.R |only R/search_analytics.R | 2 R/utility_functions.R | 10 + README.md | 33 +++++- man/serpstatr.Rd | 72 ++++++------- man/sst_call_api_method.Rd | 80 +++++++------- man/sst_lists_to_df.Rd | 60 +++++------ man/sst_return_check.Rd | 44 ++++---- man/sst_rt_competitors.Rd |only man/sst_rt_positions_history.Rd |only man/sst_rt_project_regions.Rd |only man/sst_rt_serp_history.Rd |only man/sst_sa_database_info.Rd | 70 ++++++------- man/sst_sa_domain_keywords.Rd | 214 ++++++++++++++++++++-------------------- man/sst_sa_domains_info.Rd | 126 +++++++++++------------ man/sst_sa_keyword_top.Rd | 86 ++++++++-------- man/sst_sa_keywords.Rd | 194 ++++++++++++++++++------------------ man/sst_sa_keywords_info.Rd | 128 +++++++++++------------ man/sst_sa_stats.Rd | 66 ++++++------ 23 files changed, 650 insertions(+), 597 deletions(-)
Title: Data Visualization for Statistics in Social Science
Description: Collection of plotting and table output functions for data
visualization. Results of various statistical analyses (that are commonly used
in social sciences) can be visualized using this package, including simple and
cross tabulated frequencies, histograms, box plots, (generalized) linear models,
mixed effects models, principal component analysis and correlation matrices,
cluster analyses, scatter plots, stacked scales, effects plots of regression
models (including interaction terms) and much more. This package supports
labelled data.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>),
Alexander Bartel [ctb] (<https://orcid.org/0000-0002-1280-6138>),
Carsten Schwemmer [ctb],
Chuck Powell [ctb] (<https://orcid.org/0000-0002-3606-2188>),
Amir Djalovski [ctb],
Johannes Titz [ctb] (<https://orcid.org/0000-0002-1102-5719>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjPlot versions 2.8.6 dated 2020-10-28 and 2.8.7 dated 2021-01-10
DESCRIPTION | 26 - MD5 | 72 +- NEWS.md | 13 R/html_print.R | 22 R/html_print_utils.R | 4 R/plot_frq.R | 2 R/plot_grpfrq.R | 2 R/plot_kfold_cv.R | 2 R/plot_model.R | 6 R/tab_model.R | 22 R/tidiers.R | 3 build/vignette.rds |binary inst/doc/blackwhitefigures.html | 44 - inst/doc/custplot.html | 44 - inst/doc/plot_interactions.html | 44 - inst/doc/plot_likert_scales.html | 56 -- inst/doc/plot_marginal_effects.html | 44 - inst/doc/plot_model_estimates.html | 46 - inst/doc/sjtitemanalysis.html | 134 +---- inst/doc/tab_bayes.html | 182 ------- inst/doc/tab_mixed.html | 115 +--- inst/doc/tab_model_estimates.html | 44 - inst/doc/tab_model_robust.R | 97 ++-- inst/doc/tab_model_robust.Rmd | 9 inst/doc/tab_model_robust.html | 866 ++++++++++++++++++++++++++++++++---- inst/doc/table_css.html | 47 - man/plot_frq.Rd | 2 man/plot_gpt.Rd | 2 man/plot_grpfrq.Rd | 2 man/plot_kfold_cv.Rd | 2 man/plot_model.Rd | 6 man/plot_models.Rd | 2 man/plot_scatter.Rd | 2 man/tab_corr.Rd | 8 man/tab_df.Rd | 5 man/tab_model.Rd | 10 vignettes/tab_model_robust.Rmd | 9 37 files changed, 1101 insertions(+), 895 deletions(-)
Title: Create Complex UpSet Plots Using 'ggplot2' Components
Description: UpSet plots are an improvement over Venn Diagram for set overlap visualizations.
Striving to bring the best of the 'UpSetR' and 'ggplot2', this package offers a way to create
complex overlap visualisations, using simple and familiar tools, i.e. geoms of 'ggplot2'.
For introduction to UpSet concept, see Lex et al. (2014) <doi:10.1109/TVCG.2014.2346248>.
Author: Michał Krassowski [aut, cre] (<https://orcid.org/0000-0002-9638-7785>)
Maintainer: Michał Krassowski <krassowski.michal+r@gmail.com>
Diff between ComplexUpset versions 0.7.3 dated 2020-12-08 and 1.0.3 dated 2021-01-10
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Title: Tests for Rotational Symmetry on the Hypersphere
Description: Implementation of the tests for rotational symmetry on the hypersphere
proposed in García-Portugués, Paindaveine and Verdebout (2020)
<doi:10.1080/01621459.2019.1665527>. The package also implements the
proposed distributions on the hypersphere, based on the tangent-normal
decomposition, and allows for the replication of the data application
considered in the paper.
Author: Eduardo García-Portugués [aut, cre]
(<https://orcid.org/0000-0002-9224-4111>),
Davy Paindaveine [aut],
Thomas Verdebout [aut]
Maintainer: Eduardo García-Portugués <edgarcia@est-econ.uc3m.es>
Diff between rotasym versions 1.0.9 dated 2020-08-27 and 1.1.0 dated 2021-01-10
DESCRIPTION | 10 ++++---- MD5 | 55 +++++++++++++++++++++++----------------------- NEWS.md | 8 +++++- R/ACG.R | 6 +++-- R/TE.R | 12 ++++++---- R/TM.R | 12 ++++++---- R/cosines-signs.R | 4 +-- R/data.R | 16 ++++++++----- R/estimators.R | 4 +-- R/rotasym-package.R | 4 +-- R/tang-norm.R | 12 ++++++---- R/tests.R | 4 +-- R/unif.R | 4 ++- R/vMF.R | 8 ++++-- build |only inst/CITATION | 8 +++--- man/ACG.Rd | 6 +++-- man/cosines-signs.Rd | 4 +-- man/estimators.Rd | 4 +-- man/rotasym-package.Rd | 4 +-- man/sunspots_births.Rd | 16 ++++++++----- man/tang-norm-decomp.Rd | 12 ++++++---- man/tangent-elliptical.Rd | 12 ++++++---- man/tangent-vMF.Rd | 12 ++++++---- man/test_rotasym.Rd | 4 +-- man/unif.Rd | 4 ++- man/vMF.Rd | 8 ++++-- src/RcppExports.cpp | 2 - src/vMF.cpp | 4 +-- 29 files changed, 155 insertions(+), 104 deletions(-)
Title: Shed Light on Black Box Machine Learning Models
Description: Shed light on black box machine learning models by
the help of model performance, variable importance, global surrogate
models, ICE profiles, partial dependence (Friedman J. H. (2001)
<doi:10.1214/aos/1013203451>), accumulated local effects (Apley D. W.
(2016) <arXiv:1612.08468>), further effects plots, scatter plots,
interaction strength, and variable contribution breakdown (approximate
SHAP) for single observations (Gosiewska and Biecek (2019)
<arxiv:1903.11420>). All tools are implemented to work with case
weights and allow for stratified analysis. Furthermore, multiple
flashlights can be combined and analyzed together.
Author: Michael Mayer [aut, cre, cph]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between flashlight versions 0.7.3 dated 2020-06-20 and 0.7.4 dated 2021-01-10
DESCRIPTION | 10 +-- MD5 | 30 ++++----- NEWS.md | 4 + R/light_breakdown.R | 2 R/light_importance.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/caret.html | 30 +++++++++ inst/doc/flashlight.R | 63 ++++++++++++-------- inst/doc/flashlight.Rmd | 63 ++++++++++++-------- inst/doc/flashlight.html | 144 +++++++++++++++++++++++++++-------------------- inst/doc/mlr3.html | 30 +++++++++ man/light_breakdown.Rd | 2 man/light_importance.Rd | 2 vignettes/biblio.bib | 11 +-- vignettes/flashlight.Rmd | 63 ++++++++++++-------- 16 files changed, 291 insertions(+), 167 deletions(-)
Title: Factor Analysis for Data
Description: Compute maximum likelihood estimators of parameters in a Gaussian factor model using
the the matrix-free methodology described in Dai et al. (2020) <doi:10.1080/10618600.2019.1704296>.
In contrast to the factanal() function from 'stats' package, fad() can handle high-dimensional datasets where
number of variables exceed the sample size and is also substantially faster than the EM algorithms.
Author: Somak Dutta [aut, cre],
Fan Dai [aut],
Ranjan Maitra [ctb]
Maintainer: Somak Dutta <somakd@iastate.edu>
Diff between fad versions 0.2-1 dated 2020-01-24 and 0.3-3 dated 2021-01-10
DESCRIPTION | 14 ++-- MD5 | 26 +++++--- NAMESPACE | 2 R/RcppExports.R | 28 +++++++++ R/fad.r | 11 ++- R/fads.fit.rxmd.r |only R/print.r | 3 - R/zzz.r |only build/vignette.rds |binary inst/doc/fad-vignette.Rnw | 2 inst/doc/fad-vignette.pdf |binary src/ER.cpp |only src/RcppExports.cpp | 109 ++++++++++++++++++++++++++++++++++++ src/eig_RXmD.cpp |only src/utils.cpp | 135 ++++++++++++++++++++++++++++++++++++++++++++- vignettes/fad-vignette.Rnw | 2 16 files changed, 302 insertions(+), 30 deletions(-)
Title: Discover and Install Useful RStudio Addins
Description: Browse through a continuously updated list of existing RStudio
addins and install/uninstall their corresponding packages.
Author: Dean Attali [aut, cre] (<https://orcid.org/0000-0002-5645-3493>)
Maintainer: Dean Attali <daattali@gmail.com>
Diff between addinslist versions 0.3 dated 2019-08-30 and 0.4.0 dated 2021-01-10
DESCRIPTION | 17 ++++---- MD5 | 10 ++-- NEWS.md | 8 ++- R/addin.R | 9 +--- R/utils.R | 28 ++++++------- README.md | 124 ++++++++++++++---------------------------------------------- 6 files changed, 68 insertions(+), 128 deletions(-)
Title: Numerical Integration over Spheres and Balls in n-Dimensions;
Multivariate Polar Coordinates
Description: Provides several methods to integrate functions over the unit
sphere and ball in n-dimensional Euclidean space. Routines for converting to/from
multivariate polar/spherical coordinates are also provided.
Author: John P. Nolan, American University
Maintainer: John P. Nolan <jpnolan@american.edu>
Diff between SphericalCubature versions 1.4 dated 2017-09-16 and 1.5 dated 2021-01-10
DESCRIPTION | 11 + MD5 | 19 +-- R/SphericalCubature.R | 228 +++++++++++++++++++++++++++++++-------- demo/SphericalCubature.R | 17 +- man/SphericalCubature-package.Rd | 83 ++++++++++---- man/SphericalMisc.Rd | 10 + man/adaptIntegrateBallTri.Rd |only man/adaptIntegrateSpherePolar.Rd | 31 ++--- man/adaptIntegrateSphereTri.Rd | 59 ++++++---- man/integrateSpherePolynomial.Rd | 4 man/rect2polar.Rd | 19 +-- 11 files changed, 341 insertions(+), 140 deletions(-)
More information about SphericalCubature at CRAN
Permanent link
Title: Spatial Analysis and Modelling Utilities
Description: Utilities to support spatial data manipulation, query, sampling
and modelling. Functions include models for species population density, download
utilities for climate and global deforestation spatial products, spatial
smoothing, multivariate separability, point process model for creating pseudo-
absences and sub-sampling, polygon and point-distance landscape metrics,
auto-logistic model, sampling models, cluster optimization, statistical
exploratory tools and raster-based metrics.
Author: Jeffrey S. Evans [aut, cre],
Melanie A. Murphy [ctb],
Karthik Ram [ctb]
Maintainer: Jeffrey S. Evans <jeffrey_evans@tnc.org>
Diff between spatialEco versions 1.3-3 dated 2020-12-02 and 1.3-5 dated 2021-01-10
DESCRIPTION | 8 ++++---- MD5 | 16 +++++++++------- NAMESPACE | 1 + R/crossCorrelation.R | 19 +++++++++---------- R/print.cross.cor.R | 6 ++++-- R/rasterDistance.R |only inst/CITATION | 2 +- inst/NEWS | 9 +++++++++ man/crossCorrelation.Rd | 19 +++++++++---------- man/rasterDistance.Rd |only 10 files changed, 46 insertions(+), 34 deletions(-)
Title: Semantic UI Support for Shiny
Description: Creating a great user interface for your Shiny apps
can be a hassle, especially if you want to work purely in R
and don't want to use, for instance HTML templates. This
package adds support for a powerful UI library Semantic UI -
<https://fomantic-ui.com/>. It also supports
universal UI input binding that works with various DOM elements.
Author: Filip Stachura [aut],
Dominik Krzeminski [cre],
Krystian Igras [aut],
Adam Forys [aut],
Paweł Przytuła [aut],
Jakub Chojna [aut],
Olga Mierzwa-Sulima [aut],
Ashley Baldry [ctb],
Jakub Chojna [ctb],
Olga Mierzwa-Sulima [ctb],
Pedro Manuel Coutinho da Silva [ctb],
Paweł Przytuła [ctb],
Kamil Żyła [ctb],
Rabii Bouhestine [ctb],
Appsilon Sp. z o.o. [cph]
Maintainer: Dominik Krzeminski <dominik@appsilon.com>
Diff between shiny.semantic versions 0.4.0 dated 2020-09-07 and 0.4.2 dated 2021-01-10
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More information about shiny.semantic at CRAN
Permanent link
Title: Credit Scoring Tools
Description: Grouping essential tools for credit scoring. These statistical tools may be useful for other use-cases as well but were primarily designed for it. First, there are Reject Inference methods (Ehrhardt et al. (2017) <arXiv:1903.10855>). Second, we build upon the already CRAN-available package 'discretization' to automate discretization of continuous features.
Author: Adrien Ehrhardt [aut, cre]
Maintainer: Adrien Ehrhardt <adrien.ehrhardt@centraliens-lille.org>
Diff between scoringTools versions 0.1.1 dated 2020-10-27 and 0.1.2 dated 2021-01-10
scoringTools-0.1.1/scoringTools/R/scoring.R |only scoringTools-0.1.1/scoringTools/inst/document.R |only scoringTools-0.1.1/scoringTools/inst/lint.R |only scoringTools-0.1.1/scoringTools/inst/rhubcheck.R |only scoringTools-0.1.1/scoringTools/man/modchi2_iter.Rd |only scoringTools-0.1.2/scoringTools/DESCRIPTION | 15 scoringTools-0.1.2/scoringTools/MD5 | 87 scoringTools-0.1.2/scoringTools/NAMESPACE | 3 scoringTools-0.1.2/scoringTools/NEWS.md | 11 scoringTools-0.1.2/scoringTools/R/allMethods.R | 25 scoringTools-0.1.2/scoringTools/R/augmentation.R | 9 scoringTools-0.1.2/scoringTools/R/chi2.R | 92 scoringTools-0.1.2/scoringTools/R/chiM.R | 91 scoringTools-0.1.2/scoringTools/R/discretize.cutp.R | 2 scoringTools-0.1.2/scoringTools/R/echi2.R | 91 scoringTools-0.1.2/scoringTools/R/fuzzyAugmentation.R | 9 scoringTools-0.1.2/scoringTools/R/generate_data.R |only scoringTools-0.1.2/scoringTools/R/get_cutp.R | 4 scoringTools-0.1.2/scoringTools/R/mdlp.R | 107 scoringTools-0.1.2/scoringTools/R/methodsDisc.R |only scoringTools-0.1.2/scoringTools/R/modChi2.R | 93 scoringTools-0.1.2/scoringTools/R/parcelling.R | 9 scoringTools-0.1.2/scoringTools/R/scoringTools.R |only scoringTools-0.1.2/scoringTools/R/topdown.R | 87 scoringTools-0.1.2/scoringTools/R/twins.R | 9 scoringTools-0.1.2/scoringTools/build/vignette.rds |binary scoringTools-0.1.2/scoringTools/inst/doc/appendix_tree_biasedness.html | 584 +-- scoringTools-0.1.2/scoringTools/inst/doc/figure1.html | 559 +- scoringTools-0.1.2/scoringTools/inst/doc/figure2.html | 1454 +++---- scoringTools-0.1.2/scoringTools/inst/doc/figure3.html | 1468 +++---- scoringTools-0.1.2/scoringTools/inst/doc/scoringTools.html | 1090 ++--- scoringTools-0.1.2/scoringTools/inst/shiny/demo/server.R | 1898 +++++++++- scoringTools-0.1.2/scoringTools/inst/shiny/demo/ui.R | 797 +++- scoringTools-0.1.2/scoringTools/man/augmentation.Rd | 9 scoringTools-0.1.2/scoringTools/man/fuzzy_augmentation.Rd | 9 scoringTools-0.1.2/scoringTools/man/generate_data.Rd |only scoringTools-0.1.2/scoringTools/man/lendingClub.Rd | 4 scoringTools-0.1.2/scoringTools/man/modChi2_iter.Rd |only scoringTools-0.1.2/scoringTools/man/parcelling.Rd | 9 scoringTools-0.1.2/scoringTools/man/predict.Rd | 2 scoringTools-0.1.2/scoringTools/man/scoringTools-package.Rd | 2 scoringTools-0.1.2/scoringTools/man/twins.Rd | 9 scoringTools-0.1.2/scoringTools/tests/testthat/test-chi2.R | 58 scoringTools-0.1.2/scoringTools/tests/testthat/test-chiM.R | 62 scoringTools-0.1.2/scoringTools/tests/testthat/test-data-generation.R |only scoringTools-0.1.2/scoringTools/tests/testthat/test-echi2.R | 58 scoringTools-0.1.2/scoringTools/tests/testthat/test-mdlp.R | 64 scoringTools-0.1.2/scoringTools/tests/testthat/test-methods.R | 14 scoringTools-0.1.2/scoringTools/tests/testthat/test-modchi2.R | 70 scoringTools-0.1.2/scoringTools/tests/testthat/test-topdown.R | 128 50 files changed, 5566 insertions(+), 3526 deletions(-)
Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including
functions modelled on base graphics (plot3d(), etc.) as well as functions for
constructing representations of geometric objects (cube3d(), etc.). Output
may be on screen using OpenGL, or to various standard 3D file formats including
WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Daniel Adler <dadler@uni-goettingen.de>, Duncan Murdoch <murdoch.duncan@gmail.com>, and others (see README)
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between rgl versions 0.103.5 dated 2020-11-23 and 0.104.16 dated 2021-01-10
rgl-0.103.5/rgl/build/rgl.pdf |only rgl-0.103.5/rgl/inst/shinyDemo |only rgl-0.103.5/rgl/inst/shinySimple |only rgl-0.103.5/rgl/src/Makevars.win |only rgl-0.104.16/rgl/DESCRIPTION | 17 rgl-0.104.16/rgl/MD5 | 336 ++--- rgl-0.104.16/rgl/NAMESPACE | 9 rgl-0.104.16/rgl/R/Sweave_knitr.R | 43 rgl-0.104.16/rgl/R/addNormals.mesh3d.R | 69 - rgl-0.104.16/rgl/R/animate.R | 5 rgl-0.104.16/rgl/R/arrow3d.R | 5 rgl-0.104.16/rgl/R/ashape3d.R | 1 rgl-0.104.16/rgl/R/asy.R | 9 rgl-0.104.16/rgl/R/axes.R | 19 rgl-0.104.16/rgl/R/bgplot3d.R | 2 rgl-0.104.16/rgl/R/clipMesh3d.R | 5 rgl-0.104.16/rgl/R/convertScene.R | 16 rgl-0.104.16/rgl/R/cylinder3d.R | 19 rgl-0.104.16/rgl/R/device.R | 11 rgl-0.104.16/rgl/R/ellipse3d.R | 21 rgl-0.104.16/rgl/R/enum.R | 36 rgl-0.104.16/rgl/R/filledContour3d.R | 2 rgl-0.104.16/rgl/R/getscene.R | 4 rgl-0.104.16/rgl/R/grid3d.R | 2 rgl-0.104.16/rgl/R/identify3d.R | 6 rgl-0.104.16/rgl/R/internal.R | 53 rgl-0.104.16/rgl/R/material.R | 6 rgl-0.104.16/rgl/R/matrices.R | 13 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45 rgl-0.104.16/rgl/cleanup | 3 rgl-0.104.16/rgl/configure | 280 +++- rgl-0.104.16/rgl/configure.ac | 217 ++- rgl-0.104.16/rgl/configure.win | 116 + rgl-0.104.16/rgl/demo/00Index | 6 rgl-0.104.16/rgl/demo/abundance.r | 5 rgl-0.104.16/rgl/demo/bivar.r | 9 rgl-0.104.16/rgl/demo/envmap.r | 8 rgl-0.104.16/rgl/demo/flag.R | 1 rgl-0.104.16/rgl/demo/hist3d.r | 22 rgl-0.104.16/rgl/demo/lollipop3d.R | 8 rgl-0.104.16/rgl/demo/lsystem.r | 23 rgl-0.104.16/rgl/demo/mouseCallbacks.R | 11 rgl-0.104.16/rgl/demo/regression.r | 10 rgl-0.104.16/rgl/demo/rgl.r | 1 rgl-0.104.16/rgl/demo/shapes3d.R | 4 rgl-0.104.16/rgl/demo/shinyDemo.R | 182 ++ rgl-0.104.16/rgl/demo/shinyMouse.R |only rgl-0.104.16/rgl/demo/shinyTabs.R |only rgl-0.104.16/rgl/demo/shinyToggle.R | 36 rgl-0.104.16/rgl/demo/simpleShinyRgl.R | 2 rgl-0.104.16/rgl/demo/stereo.R | 7 rgl-0.104.16/rgl/demo/subdivision.r | 9 rgl-0.104.16/rgl/inst/NEWS | 25 rgl-0.104.16/rgl/inst/doc/WebGL.html | 498 ++++--- rgl-0.104.16/rgl/inst/doc/rgl.Rmd | 6 rgl-0.104.16/rgl/inst/doc/rgl.html | 505 ++++---- rgl-0.104.16/rgl/inst/htmlwidgets/lib/CanvasMatrix/CanvasMatrix.src.js | 6 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/controls.src.js | 22 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/draw.src.js | 146 +- rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/init.src.js | 50 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/mouse.src.js | 35 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/pieces.src.js | 13 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/projection.src.js | 22 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/rglClass.src.js | 7 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/rglTimer.src.js | 3 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/selection.src.js | 5 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/shaders.src.js | 42 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/subscenes.src.js | 6 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/textures.src.js | 4 rgl-0.104.16/rgl/inst/htmlwidgets/lib/rglClass/utils.src.js | 49 rgl-0.104.16/rgl/inst/htmlwidgets/rglWebGL.js | 10 rgl-0.104.16/rgl/inst/slowTests/demos.R | 3 rgl-0.104.16/rgl/man/addNormals.Rd | 14 rgl-0.104.16/rgl/man/bg.Rd | 21 rgl-0.104.16/rgl/man/material.Rd | 4 rgl-0.104.16/rgl/man/open3d.Rd | 2 rgl-0.104.16/rgl/man/par3d.Rd | 2 rgl-0.104.16/rgl/man/rgl-internal.Rd | 4 rgl-0.104.16/rgl/man/rgl.init.Rd | 15 rgl-0.104.16/rgl/man/rglShared.Rd | 2 rgl-0.104.16/rgl/man/rglwidget.Rd | 44 rgl-0.104.16/rgl/man/select3d.Rd | 16 rgl-0.104.16/rgl/man/shinyGetPar3d.Rd | 6 rgl-0.104.16/rgl/man/tkspinControl.Rd | 4 rgl-0.104.16/rgl/src/BBoxDeco.cpp | 41 rgl-0.104.16/rgl/src/BBoxDeco.h | 4 rgl-0.104.16/rgl/src/Background.cpp | 19 rgl-0.104.16/rgl/src/Background.h | 4 rgl-0.104.16/rgl/src/ClipPlane.cpp | 6 rgl-0.104.16/rgl/src/Color.cpp | 10 rgl-0.104.16/rgl/src/Light.cpp | 2 rgl-0.104.16/rgl/src/LineStripSet.cpp | 2 rgl-0.104.16/rgl/src/Makevars.in | 2 rgl-0.104.16/rgl/src/Material.cpp | 11 rgl-0.104.16/rgl/src/Material.h | 2 rgl-0.104.16/rgl/src/NULLgui.cpp | 45 rgl-0.104.16/rgl/src/OpenGL |only rgl-0.104.16/rgl/src/PlaneSet.cpp | 8 rgl-0.104.16/rgl/src/PrimitiveSet.cpp | 4 rgl-0.104.16/rgl/src/Shape.cpp | 11 rgl-0.104.16/rgl/src/Shape.h | 2 rgl-0.104.16/rgl/src/SphereMesh.cpp | 8 rgl-0.104.16/rgl/src/SphereSet.cpp | 6 rgl-0.104.16/rgl/src/SpriteSet.cpp | 12 rgl-0.104.16/rgl/src/SpriteSet.h | 2 rgl-0.104.16/rgl/src/String.cpp | 2 rgl-0.104.16/rgl/src/Surface.cpp | 14 rgl-0.104.16/rgl/src/TextSet.cpp | 8 rgl-0.104.16/rgl/src/Texture.cpp | 16 rgl-0.104.16/rgl/src/Viewpoint.cpp | 18 rgl-0.104.16/rgl/src/api.cpp | 70 - rgl-0.104.16/rgl/src/api.h | 2 rgl-0.104.16/rgl/src/build/autoconf/config.guess | 267 ++-- rgl-0.104.16/rgl/src/build/autoconf/config.sub | 631 +++++----- rgl-0.104.16/rgl/src/config.h | 11 rgl-0.104.16/rgl/src/ext/ftgl/FTCharToGlyphIndexMap.h | 4 rgl-0.104.16/rgl/src/ext/ftgl/FTCharmap.cpp | 2 rgl-0.104.16/rgl/src/ext/ftgl/FTFace.cpp | 4 rgl-0.104.16/rgl/src/ext/ftgl/FTGlyph/FTBufferGlyph.cpp | 4 rgl-0.104.16/rgl/src/ext/ftgl/FTUnicode.h | 4 rgl-0.104.16/rgl/src/fps.cpp | 4 rgl-0.104.16/rgl/src/gl2ps.c | 56 rgl-0.104.16/rgl/src/gl2ps.h | 4 rgl-0.104.16/rgl/src/glErrors.cpp | 6 rgl-0.104.16/rgl/src/glgui.cpp | 20 rgl-0.104.16/rgl/src/gui.cpp | 4 rgl-0.104.16/rgl/src/init.cpp | 4 rgl-0.104.16/rgl/src/opengl.h | 13 rgl-0.104.16/rgl/src/par3d.cpp | 15 rgl-0.104.16/rgl/src/pixmap.cpp | 1 rgl-0.104.16/rgl/src/platform.cpp | 67 - rgl-0.104.16/rgl/src/platform.h | 5 rgl-0.104.16/rgl/src/pngpixmap.h | 2 rgl-0.104.16/rgl/src/pretty.c | 4 rgl-0.104.16/rgl/src/render.cpp | 12 rgl-0.104.16/rgl/src/rglmath.cpp | 12 rgl-0.104.16/rgl/src/rglview.cpp | 22 rgl-0.104.16/rgl/src/scene.cpp | 5 rgl-0.104.16/rgl/src/select.cpp | 12 rgl-0.104.16/rgl/src/subscene.cpp | 30 rgl-0.104.16/rgl/src/subscene.h | 4 rgl-0.104.16/rgl/src/x11gui.cpp | 2 rgl-0.104.16/rgl/vignettes/rgl.Rmd | 6 rgl-0.104.16/rgl/vignettes/setup.R | 2 172 files changed, 3205 insertions(+), 2185 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Armadillo requires a C++11 compiler.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates and Binxiang Ni
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.10.1.2.0 dated 2020-11-16 and 0.10.1.2.2 dated 2021-01-10
ChangeLog | 43 +++++++++++++++++++++++++++++ DESCRIPTION | 38 ++++++++++++------------- MD5 | 27 +++++++++--------- R/RcppArmadillo.package.skeleton.R | 4 +- R/RcppExports.R | 16 +++++----- README.md | 3 +- build/partial.rdb |only configure | 18 ++++++------ configure.ac | 4 +- inst/NEWS.Rd | 9 ++++++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo_bits/arma_cmath.hpp | 20 ++++++------- inst/tinytest/test_sparseConversion.R | 22 ++++++++------ man/RcppArmadillo-package.Rd | 28 ++++++++---------- 15 files changed, 144 insertions(+), 88 deletions(-)
Title: Analise multivariada (brazilian portuguese)
Description: Pacote para analise multivariada, tendo funcoes que executam analise de correspondencia simples (CA) e multipla (MCA), analise de componentes principais (PCA), analise de correlacao canonica (CCA), analise fatorial (FA), escalonamento multidimensional (MDS), analise discriminante linear (LDA) e quadratica (QDA), analise de cluster hierarquico e nao hierarquico, regressao linear simples e multipla, analise de multiplos fatores (MFA) para dados quantitativos, qualitativos, de frequencia (MFACT) e dados mistos, biplot, scatter plot, projection pursuit (PP), grant tour e outras funcoes uteis para a analise multivariada.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@des.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar.pt versions 2.1.3 dated 2020-05-22 and 2.1.4 dated 2021-01-10
DESCRIPTION | 10 ++-- MD5 | 88 +++++++++++++++++++----------------- NAMESPACE | 8 +-- R/Biplot.R | 40 ++++++++++++++-- R/CCA.R | 36 ++++++-------- R/Cluster.R | 48 +++++++++++++++++-- R/FA.R | 93 +++++++++++--------------------------- R/GrandTour.R | 48 ++++++++++++------- R/MDS.R | 42 ++++++++++++++--- R/PCA.R | 12 ++-- R/Plot.CA.R | 118 +++++++++++++++++++++++++++++++++---------------- R/Plot.CCA.R | 69 ++++++++++++++++++++++------ R/Plot.Cor.R |only R/Plot.FA.R | 61 ++++++++++++++++++++++--- R/Plot.MFA.R | 73 +++++++++++++++++++++++++----- R/Plot.PCA.R | 55 +++++++++++++++++++--- R/Plot.PP.R | 50 +++++++++++++++++--- R/Plot.Regr.R | 63 ++++++++++++++++++++++---- R/Scatter.R |only man/Biplot.Rd | 15 ++++-- man/CA.Rd | 12 ++-- man/CCA.Rd | 24 ++++----- man/Cluster.Rd | 33 ++++++++----- man/CoefVar.Rd | 8 +-- man/DA.Rd | 32 ++++++------- man/Data_Cafes.Rd | 16 +++--- man/Data_Individuos.Rd | 16 +++--- man/FA.Rd | 18 +++---- man/GSVD.Rd | 8 +-- man/GrandTour.Rd | 31 +++++++----- man/MDS.Rd | 14 ++++- man/MFA.Rd | 8 +-- man/MVar.pt-package.Rd | 6 +- man/NormData.Rd | 16 +++--- man/PCA.Rd | 14 ++--- man/PP_Index.Rd | 38 ++++++++------- man/PP_Optimizer.Rd | 36 +++++++------- man/Plor.Cor.Rd |only man/Plot.CA.Rd | 32 ++++++++----- man/Plot.CCA.Rd | 24 ++++++--- man/Plot.FA.Rd | 20 +++++--- man/Plot.MFA.Rd | 30 +++++++----- man/Plot.PCA.Rd | 19 +++++-- man/Plot.PP.Rd | 57 +++++++++++++---------- man/Plot.Regr.Rd | 39 +++++++++------- man/Regr.Rd | 20 +++----- man/Scatter.Rd |only 47 files changed, 970 insertions(+), 530 deletions(-)
Title: Multiple Factor Analysis (MFA)
Description: Performs Multiple Factor Analysis method for quantitative, categorical, frequency and mixed data, in addition to generating a lot of graphics, also has other useful functions.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@dex.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MFAg versions 1.7 dated 2020-05-22 and 1.8 dated 2021-01-10
DESCRIPTION | 8 ++--- MD5 | 16 +++++----- NAMESPACE | 5 +-- R/Plot.MFA_English.R | 74 ++++++++++++++++++++++++++++++++++++++++-------- man/GSVD_English.Rd | 8 ++--- man/MFA_English.Rd | 8 ++--- man/MFAg-package.Rd | 4 +- man/NormData_English.Rd | 18 +++++------ man/Plot.MFA_English.Rd | 30 ++++++++++++------- 9 files changed, 116 insertions(+), 55 deletions(-)
Title: Easy Handling Discrete Time Markov Chains
Description: Functions and S4 methods to create and manage discrete time Markov
chains more easily. In addition functions to perform statistical (fitting
and drawing random variates) and probabilistic (analysis of their structural
proprieties) analysis are provided. See Spedicato (2017) <doi:10.32614/RJ-2017-036>.
Author: Giorgio Alfredo Spedicato [aut, cre]
(<https://orcid.org/0000-0002-0315-8888>),
Tae Seung Kang [aut],
Sai Bhargav Yalamanchi [aut],
Mildenberger Thoralf [ctb] (<https://orcid.org/0000-0001-7242-1873>),
Deepak Yadav [aut],
Ignacio Cordón [aut] (<https://orcid.org/0000-0002-3152-0231>),
Vandit Jain [ctb],
Toni Giorgino [ctb] (<https://orcid.org/0000-0001-6449-0596>),
Richèl J.C. Bilderbeek [ctb] (<https://orcid.org/0000-0003-1107-7049>),
Daniel Ebbert [ctb] (<https://orcid.org/0000-0003-3666-7205>),
Shreyash Maheshwari [ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between markovchain versions 0.8.5-3 dated 2020-12-06 and 0.8.5-4 dated 2021-01-10
markovchain-0.8.5-3/markovchain/tests/testthat/Rplots.pdf |only markovchain-0.8.5-4/markovchain/DESCRIPTION | 10 +++++----- markovchain-0.8.5-4/markovchain/MD5 | 9 ++++----- markovchain-0.8.5-4/markovchain/inst/doc/an_introduction_to_markovchain_package.pdf |binary markovchain-0.8.5-4/markovchain/inst/doc/gsoc_2017_additions.pdf |binary markovchain-0.8.5-4/markovchain/inst/doc/higher_order_markov_chains.pdf |binary 6 files changed, 9 insertions(+), 10 deletions(-)
Title: Provides Access to Git Repositories
Description: Interface to the 'libgit2' library, which is a pure C
implementation of the 'Git' core methods. Provides access to 'Git'
repositories to extract data and running some basic 'Git'
commands.
Author: See AUTHORS file.
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between git2r versions 0.27.1 dated 2020-05-03 and 0.28.0 dated 2021-01-10
DESCRIPTION | 10 +- MD5 | 83 ++++++++++---------- NEWS | 17 ++++ R/checkout.R | 7 + configure | 36 +++++++- configure.ac | 23 ++++- src/Makevars.win | 2 src/git2r-win.def |only src/git2r_S3.c | 8 + src/git2r_arg.c | 93 ++++++++++++++++------ src/git2r_blame.c | 15 ++- src/git2r_blob.c | 29 +++++-- src/git2r_branch.c | 60 ++++++++++---- src/git2r_checkout.c | 14 ++- src/git2r_clone.c | 7 + src/git2r_commit.c | 39 +++++++-- src/git2r_config.c | 44 ++++++++-- src/git2r_cred.c | 21 +++-- src/git2r_diff.c | 202 ++++++++++++++++++++++++++++++++++++------------- src/git2r_error.c | 6 - src/git2r_graph.c | 13 ++- src/git2r_index.c | 14 ++- src/git2r_libgit2.c | 14 ++- src/git2r_merge.c | 40 +++++++-- src/git2r_note.c | 27 ++++-- src/git2r_object.c | 8 + src/git2r_odb.c | 38 ++++++--- src/git2r_oid.c | 8 + src/git2r_push.c | 14 ++- src/git2r_reference.c | 18 +++- src/git2r_reflog.c | 11 +- src/git2r_remote.c | 45 ++++++++-- src/git2r_repository.c | 61 +++++++++++--- src/git2r_reset.c | 13 ++- src/git2r_revparse.c | 8 + src/git2r_revwalk.c | 32 +++++-- src/git2r_signature.c | 17 +++- src/git2r_stash.c | 31 +++++-- src/git2r_status.c | 34 +++++--- src/git2r_tag.c | 32 ++++++- src/git2r_transfer.c | 4 src/git2r_tree.c | 17 +++- tests/pull.R | 19 ++-- 43 files changed, 910 insertions(+), 324 deletions(-)
Title: Diffusion Model of Conflict (DMC) in Reaction Time Tasks
Description: DMC model simulation detailed in Ulrich, R., Schroeter, H., Leuthold, H., & Birngruber, T. (2015).
Automatic and controlled stimulus processing in conflict tasks: Superimposed diffusion processes and delta functions.
Cognitive Psychology, 78, 148-174. Ulrich et al. (2015) <doi:10.1016/j.cogpsych.2015.02.005>.
Decision processes within choice reaction-time (CRT) tasks are often modelled using evidence accumulation models (EAMs),
a variation of which is the Diffusion Decision Model (DDM, for a review, see Ratcliff & McKoon, 2008).
Ulrich et al. (2015) introduced a Diffusion Model for Conflict tasks (DMC). The DMC model combines common
features from within standard diffusion models with the addition of superimposed controlled and automatic activation.
The DMC model is used to explain distributional reaction time (and error rate) patterns in common behavioural
conflict-like tasks (e.g., Flanker task, Simon task). This R-package implements the DMC model and provides functionality
to fit the model to observed data.
Author: Ian G. Mackenzie [cre, aut],
Carolin Dudschig [aut]
Maintainer: Ian G. Mackenzie <ian.mackenzie@uni-tuebingen.de>
Diff between DMCfun versions 1.1.0 dated 2020-11-25 and 1.3.0 dated 2021-01-10
DESCRIPTION | 36 ++++++----- MD5 | 34 +++++----- R/dmcFit.R | 82 +++++++++++++++++--------- R/dmcSim.R | 5 + R/plot.R | 2 R/zzz.R | 10 +-- man/DMCfun-package.Rd | 25 ++++--- man/dmcFit.Rd | 8 ++ man/dmcFitDE.Rd | 6 + man/dmcFitSubject.Rd | 6 + man/dmcFitSubjectDE.Rd | 6 + man/dmcSim.Rd | 3 src/dmcCppR.cpp | 23 +++++++ src/inDMC.cpp | 22 ++----- src/inDMC.h | 4 - src/outDMC.cpp | 8 +- src/runDMC.cpp | 154 +++++++++++++++++++++++++------------------------ src/runDMC.h | 6 + 18 files changed, 267 insertions(+), 173 deletions(-)
Title: Continuous-Time Movement Modeling
Description: Functions for identifying, fitting, and applying continuous-space, continuous-time stochastic movement models to animal tracking data.
The package is described in Calabrese et al (2016) <doi:10.1111/2041-210X.12559>, with models and methods based on those introduced in
Fleming & Calabrese et al (2014) <doi:10.1086/675504>,
Fleming et al (2014) <doi:10.1111/2041-210X.12176>,
Fleming et al (2015) <doi:10.1103/PhysRevE.91.032107>,
Fleming et al (2015) <doi:10.1890/14-2010.1>,
Fleming et al (2016) <doi:10.1890/15-1607>,
Péron & Fleming et al (2016) <doi:10.1186/s40462-016-0084-7>,
Fleming & Calabrese (2017) <doi:10.1111/2041-210X.12673>,
Péron et al (2017) <doi:10.1002/ecm.1260>,
Fleming et al (2017) <doi:10.1016/j.ecoinf.2017.04.008>,
Fleming et al (2018) <doi:10.1002/eap.1704>,
Winner & Noonan et al (2018) <doi:10.1111/2041-210X.13027>,
Fleming et al (2019) <doi:10.1111/2041-210X.13270>,
Noonan & Fleming et al (2019) <doi:10.1186/s40462-019-0177-1>,
Fleming et al (2020) <doi:10.1101/2020.06.12.130195>,
and
Noonan et al (2020) <doi:10.1101/2020.08.24.261628>.
Author: Christen H. Fleming [aut, cre],
Justin M. Calabrese [aut],
Xianghui Dong [ctb],
Kevin Winner [ctb],
Guillaume Péron [ctb],
Michael J. Noonan [ctb],
Bart Kranstauber [ctb],
Eliezer Gurarie [ctb],
Kamran Safi [ctb],
Paul C. Cross [dtc],
Thomas Mueller [dtc],
Rogério C. de Paula [dtc],
Thomas Akre [dtc],
Jonathan Drescher-Lehman [dtc],
Autumn-Lynn Harrison [dtc],
Ronaldo G. Morato [dtc]
Maintainer: Christen H. Fleming <flemingc@si.edu>
Diff between ctmm versions 0.5.10 dated 2020-05-07 and 0.6.0 dated 2021-01-10
DESCRIPTION | 20 - MD5 | 155 +++++++------ NAMESPACE | 5 NEWS.md | 63 +++++ R/cluster.R |only R/compass.R |only R/distance.R |only R/encounter.R | 117 ++++++++-- R/export.R | 7 R/extent.R | 85 +++++-- R/generic.R | 2 R/grid.R |only R/kde.R | 205 ++---------------- R/krige.R | 20 + R/lasso.R | 6 R/matrix.R | 30 +- R/mean.R | 2 R/median.R | 6 R/meta.R | 421 +++++++++++++++++-------------------- R/meta.chisq.R |only R/meta.normal.R |only R/modes.R | 38 ++- R/optim.R | 2 R/outlier.R | 284 ++++++++++++++++++------- R/overlap.R | 154 ++++++++----- R/parameters.R | 3 R/plot.telemetry.R | 27 +- R/plot.variogram.R | 1 R/projection.R | 8 R/rsf.R |only R/select.R | 30 +- R/series.R |only R/speed.R | 27 +- R/split.R | 29 +- R/stats.R | 204 ++++++++++++++++-- R/summary.ctmm.R | 18 + R/telemetry.R | 196 ++++++++++++----- R/uere.R | 8 R/units.R | 2 R/variogram.R | 6 R/variogram.test.R | 62 ++++- README.md | 5 TODO | 19 + build/partial.rdb |only build/vignette.rds |binary inst/doc/akde.R | 10 inst/doc/akde.html | 381 ++++++++++++++++++++++++++++------ inst/doc/error.R | 32 +- inst/doc/error.Rmd | 2 inst/doc/error.html | 487 +++++++++++++++++++++++++++++++++---------- inst/doc/periodogram.R | 24 +- inst/doc/periodogram.html | 451 +++++++++++++++++++++++++++++++--------- inst/doc/variogram.R | 28 +- inst/doc/variogram.html | 515 ++++++++++++++++++++++++++++++++++------------ man/akde.Rd | 10 man/bandwidth.Rd | 10 man/ctmm-FAQ.Rd | 31 +- man/ctmm-package.Rd | 44 ++- man/ctmm.boot.Rd | 2 man/ctmm.fit.Rd | 12 - man/distance.Rd |only man/encounter.Rd | 43 +++ man/export.Rd | 2 man/extent.Rd | 7 man/gazelle.Rd | 2 man/jaguar.Rd | 2 man/mean.variogram.Rd | 2 man/meta.Rd |only man/occurrence.Rd | 4 man/outlie.Rd | 13 - man/overlap.Rd | 9 man/periodogram.Rd | 4 man/plot.telemetry.Rd | 2 man/plot.variogram.Rd | 2 man/projection.Rd | 20 + man/residuals.Rd | 5 man/select.Rd | 2 man/simulate.ctmm.Rd | 4 man/speed.Rd | 10 man/summary.UD.Rd | 2 man/uere.Rd | 6 man/unit.Rd | 2 man/variogram.Rd | 4 vignettes/error.Rmd | 2 84 files changed, 3063 insertions(+), 1392 deletions(-)
Title: Plotting for Bayesian Models
Description: Plotting functions for posterior analysis, MCMC diagnostics,
prior and posterior predictive checks, and other visualizations
to support the applied Bayesian workflow advocated in
Gabry, Simpson, Vehtari, Betancourt, and Gelman (2019) <doi:10.1111/rssa.12378>.
The package is designed not only to provide convenient functionality
for users, but also a common set of functions that can be easily used by
developers working on a variety of R packages for Bayesian modeling,
particularly (but not exclusively) packages interfacing with 'Stan'.
Author: Jonah Gabry [aut, cre],
Tristan Mahr [aut],
Paul-Christian Bürkner [ctb],
Martin Modrák [ctb],
Malcolm Barrett [ctb],
Frank Weber [ctb],
Eduardo Coronado Sroka [ctb],
Aki Vehtari [ctb]
Maintainer: Jonah Gabry <jsg2201@columbia.edu>
Diff between bayesplot versions 1.7.2 dated 2020-05-28 and 1.8.0 dated 2021-01-10
DESCRIPTION | 30 + MD5 | 146 ++++---- NAMESPACE | 8 NEWS.md | 73 +++- R/bayesplot-colors.R | 3 R/bayesplot-extractors.R | 70 +++- R/bayesplot-package.R | 12 R/helpers-ppc.R | 7 R/mcmc-diagnostics-nuts.R | 8 R/mcmc-diagnostics.R | 3 R/mcmc-intervals.R | 89 ++++- R/mcmc-traces.R | 13 R/ppc-censoring.R |only R/ppc-distributions.R | 194 ++++++++--- R/ppc-intervals.R | 2 R/ppc-loo.R | 344 ++++++++++++++++---- R/ppc-overview.R | 3 build/vignette.rds |binary inst/CITATION | 2 inst/doc/graphical-ppcs.R | 30 - inst/doc/graphical-ppcs.Rmd | 32 - inst/doc/graphical-ppcs.html | 226 +++++++------ inst/doc/plotting-mcmc-draws.R | 38 +- inst/doc/plotting-mcmc-draws.Rmd | 54 +-- inst/doc/plotting-mcmc-draws.html | 209 ++++++------ inst/doc/visual-mcmc-diagnostics.R | 56 +-- inst/doc/visual-mcmc-diagnostics.Rmd | 72 ++-- inst/doc/visual-mcmc-diagnostics.html | 410 ++++++++++++------------ man/MCMC-diagnostics.Rd | 4 man/MCMC-distributions.Rd | 2 man/MCMC-intervals.Rd | 63 ++- man/MCMC-parcoord.Rd | 6 man/MCMC-scatterplots.Rd | 2 man/MCMC-traces.Rd | 3 man/PPC-censoring.Rd |only man/PPC-discrete.Rd | 5 man/PPC-distributions.Rd | 36 ++ man/PPC-errors.Rd | 1 man/PPC-intervals.Rd | 5 man/PPC-loo.Rd | 65 ++- man/PPC-overview.Rd | 4 man/PPC-scatterplots.Rd | 1 man/PPC-test-statistics.Rd | 1 man/bayesplot-colors.Rd | 2 man/bayesplot-extractors.Rd | 20 - man/bayesplot-helpers.Rd | 22 - man/bayesplot-package.Rd | 2 man/bayesplot_theme_get.Rd | 8 man/theme_default.Rd | 2 man/tidy-params.Rd | 10 tests/testthat.R | 1 tests/testthat/data-for-ppc-tests.R | 4 tests/testthat/test-aesthetics.R | 1 tests/testthat/test-convenience-functions.R | 27 - tests/testthat/test-extractors.R | 59 ++- tests/testthat/test-helpers-mcmc.R | 15 tests/testthat/test-mcmc-diagnostics.R | 4 tests/testthat/test-mcmc-distributions.R | 5 tests/testthat/test-mcmc-intervals.R | 6 tests/testthat/test-mcmc-nuts.R | 29 + tests/testthat/test-mcmc-recover.R | 25 + tests/testthat/test-mcmc-scatter-and-parcoord.R | 26 + tests/testthat/test-mcmc-traces.R | 5 tests/testthat/test-pp_check.R | 6 tests/testthat/test-ppc-discrete.R | 23 - tests/testthat/test-ppc-distributions.R | 83 ++++ tests/testthat/test-ppc-errors.R | 17 tests/testthat/test-ppc-input-validation.R | 2 tests/testthat/test-ppc-intervals.R | 3 tests/testthat/test-ppc-loo.R | 74 +++- tests/testthat/test-ppc-scatterplots.R | 20 - tests/testthat/test-ppc-test-statistics.R | 7 vignettes/graphical-ppcs.Rmd | 32 - vignettes/plotting-mcmc-draws.Rmd | 54 +-- vignettes/visual-mcmc-diagnostics.Rmd | 72 ++-- 75 files changed, 1947 insertions(+), 1051 deletions(-)
Title: Common Plots for Analysis
Description: Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'.
Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions,
conditioned scatter plot with marginal densities,
box and stem with matching theoretical distribution, and density with matching theoretical distribution.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between WVPlots versions 1.3.1 dated 2020-10-17 and 1.3.2 dated 2021-01-10
DESCRIPTION | 14 MD5 | 18 NEWS.md | 6 R/ConditionalSmoothedScatterPlot.R | 40 + R/ThresholdPlot.R | 13 inst/doc/WVPlots_concept.html | 301 ++++++------- inst/doc/WVPlots_examples.html | 779 ++++++++++++++++------------------ man/ConditionalSmoothedScatterPlot.Rd | 11 man/MetricPairPlot.Rd | 1 man/ThresholdPlot.Rd | 1 10 files changed, 604 insertions(+), 580 deletions(-)
Title: Determining Groups in Multiples Curves
Description: A method for determining groups in multiple
curves with an automatic selection of their number based on k-means or
k-medians algorithms. The selection of the optimal number is provided by
bootstrap methods. The methodology can be applied both in regression and survival framework.
Implemented methods are:
Grouping multiple survival curves described by Villanueva et al. (2018) <doi:10.1002/sim.8016>.
Author: Nora M. Villanueva [aut, cre] (<https://orcid.org/0000-0001-8085-2745>),
Marta Sestelo [aut] (<https://orcid.org/0000-0003-4284-6509>)
Maintainer: Nora M. Villanueva <nmvillanueva@uvigo.es>
Diff between clustcurv versions 2.0.0 dated 2020-03-21 and 2.0.1 dated 2021-01-10
clustcurv-2.0.0/clustcurv/R/autoclustcurv.R |only clustcurv-2.0.0/clustcurv/R/autoplot.clustcurv.R |only clustcurv-2.0.0/clustcurv/R/kclustcurv.R |only clustcurv-2.0.0/clustcurv/man/autoclustcurv.Rd |only clustcurv-2.0.0/clustcurv/man/autoplot.clustcurv.Rd |only clustcurv-2.0.0/clustcurv/man/kclustcurv.Rd |only clustcurv-2.0.0/clustcurv/tests/testthat/test-autoclustcurv.R |only clustcurv-2.0.0/clustcurv/tests/testthat/test-kclustcurv.R |only clustcurv-2.0.1/clustcurv/DESCRIPTION | 22 ++-- clustcurv-2.0.1/clustcurv/MD5 | 49 ++++++---- clustcurv-2.0.1/clustcurv/NAMESPACE | 16 ++- clustcurv-2.0.1/clustcurv/R/autoplot.clustcurves.R |only clustcurv-2.0.1/clustcurv/R/auxfun_reg.R | 6 - clustcurv-2.0.1/clustcurv/R/auxfun_surv.R | 2 clustcurv-2.0.1/clustcurv/R/barnacle5.R | 4 clustcurv-2.0.1/clustcurv/R/kregcurves.R |only clustcurv-2.0.1/clustcurv/R/ksurvcurves.R |only clustcurv-2.0.1/clustcurv/R/print.clustcurves.R |only clustcurv-2.0.1/clustcurv/R/print.kcurves.R |only clustcurv-2.0.1/clustcurv/R/regclustcurves.R |only clustcurv-2.0.1/clustcurv/R/summary.clustcurves.R |only clustcurv-2.0.1/clustcurv/R/summary.kcurves.R |only clustcurv-2.0.1/clustcurv/R/survclustcurves.R |only clustcurv-2.0.1/clustcurv/build |only clustcurv-2.0.1/clustcurv/inst/doc |only clustcurv-2.0.1/clustcurv/man/autoplot.clustcurves.Rd |only clustcurv-2.0.1/clustcurv/man/barnacle5.Rd | 10 +- clustcurv-2.0.1/clustcurv/man/clustcurv.Rd | 2 clustcurv-2.0.1/clustcurv/man/kregcurves.Rd |only clustcurv-2.0.1/clustcurv/man/ksurvcurves.Rd |only clustcurv-2.0.1/clustcurv/man/reexports.Rd | 2 clustcurv-2.0.1/clustcurv/man/regclustcurves.Rd |only clustcurv-2.0.1/clustcurv/man/summary.clustcurves.Rd |only clustcurv-2.0.1/clustcurv/man/summary.kcurves.Rd |only clustcurv-2.0.1/clustcurv/man/survclustcurves.Rd |only clustcurv-2.0.1/clustcurv/tests/testthat/test-kregcurves.R |only clustcurv-2.0.1/clustcurv/tests/testthat/test-ksurvcurves.R |only clustcurv-2.0.1/clustcurv/tests/testthat/test-regclustcurves.R |only clustcurv-2.0.1/clustcurv/tests/testthat/test-survclustcurves.R |only clustcurv-2.0.1/clustcurv/vignettes |only 40 files changed, 68 insertions(+), 45 deletions(-)
Title: Time Series Factor Analysis
Description: Extraction of Factors from Multivariate Time Series. See '?00tsfa-Intro' for more details.
Author: Paul Gilbert and Erik Meijer <pgilbert.ttv9z@ncf.ca>
Maintainer: Paul Gilbert <pgilbert.ttv9z@ncf.ca>
Diff between tsfa versions 2014.10-1 dated 2015-05-01 and 2021.1-3 dated 2021-01-10
DESCRIPTION | 12 +++--- MD5 | 24 ++++++------- NAMESPACE | 6 ++- NEWS | 14 +++++++ build/vignette.rds |binary inst/CITATION | 4 +- inst/doc/Guide.R | 94 +++++++++++++++++++++++++-------------------------- inst/doc/Guide.Stex | 6 +-- inst/doc/Guide.pdf |binary man/estFAmodel.Rd | 2 - man/estTSFmodel.Rd | 2 - man/tsfa-package.Rd | 5 +- vignettes/Guide.Stex | 6 +-- 13 files changed, 97 insertions(+), 78 deletions(-)
Title: Analysis Of The Interpopulation Difference In Degree of Sexual
Dimorphism Using Summary Statistics
Description: Offers a solution for the unavailability of raw data in most anthropological studies by facilitating the calculations of several sexual dimorphism related analyses using the published summary statistics of metric data (mean, standard deviation and sex specific sample size).
Author: Bassam A. Abulnoor [aut, cre] (<https://orcid.org/0000-0003-4351-2754>),
MennattAllah H. Attia [aut] (<https://orcid.org/0000-0002-2304-532X>),
Lyle W. Konigsberg [aut] (<https://orcid.org/0000-0003-4052-1575>)
Maintainer: Bassam A. Abulnoor <bassam.abulnoor@gmail.com>
Diff between TestDimorph versions 0.3.5 dated 2020-10-29 and 0.4.0 dated 2021-01-10
TestDimorph-0.3.5/TestDimorph/R/V_to_R.R |only TestDimorph-0.3.5/TestDimorph/R/index_D.R |only TestDimorph-0.3.5/TestDimorph/R/to_parms.R |only TestDimorph-0.3.5/TestDimorph/R/to_symm_diag.R |only TestDimorph-0.3.5/TestDimorph/R/van_Vark.R |only TestDimorph-0.3.5/TestDimorph/data/R.rda |only TestDimorph-0.3.5/TestDimorph/man/R.Rd |only TestDimorph-0.3.5/TestDimorph/man/V_to_R.Rd |only TestDimorph-0.3.5/TestDimorph/man/index_D.Rd |only TestDimorph-0.3.5/TestDimorph/man/to_params.Rd |only TestDimorph-0.3.5/TestDimorph/man/van_Vark.Rd |only TestDimorph-0.3.5/TestDimorph/tests/figs |only TestDimorph-0.4.0/TestDimorph/DESCRIPTION | 14 TestDimorph-0.4.0/TestDimorph/MD5 | 172 +-- TestDimorph-0.4.0/TestDimorph/NAMESPACE | 15 TestDimorph-0.4.0/TestDimorph/NEWS.md | 16 TestDimorph-0.4.0/TestDimorph/R/ANOVA.R |only TestDimorph-0.4.0/TestDimorph/R/AccuModel.R | 108 + TestDimorph-0.4.0/TestDimorph/R/D_index.R |only TestDimorph-0.4.0/TestDimorph/R/Hedges_g.R |only TestDimorph-0.4.0/TestDimorph/R/MANOVA.R |only TestDimorph-0.4.0/TestDimorph/R/MANOVA_stat.R |only TestDimorph-0.4.0/TestDimorph/R/MI_index.R |only TestDimorph-0.4.0/TestDimorph/R/RawGen.R | 55 - TestDimorph-0.4.0/TestDimorph/R/Tg.R | 35 TestDimorph-0.4.0/TestDimorph/R/accu_model.R | 142 +- TestDimorph-0.4.0/TestDimorph/R/aovSS.R | 59 - TestDimorph-0.4.0/TestDimorph/R/aov_ss.R | 63 - TestDimorph-0.4.0/TestDimorph/R/data.R | 162 ++ TestDimorph-0.4.0/TestDimorph/R/extract_sum.R | 39 TestDimorph-0.4.0/TestDimorph/R/helpers.R | 544 ++++++++-- TestDimorph-0.4.0/TestDimorph/R/multivariate.R | 300 +---- TestDimorph-0.4.0/TestDimorph/R/pMatrix.R | 17 TestDimorph-0.4.0/TestDimorph/R/raw_gen.R | 75 - TestDimorph-0.4.0/TestDimorph/R/t_greene.R | 44 TestDimorph-0.4.0/TestDimorph/R/univariate.R | 144 +- TestDimorph-0.4.0/TestDimorph/R/van_vark.R |only TestDimorph-0.4.0/TestDimorph/README.md | 40 TestDimorph-0.4.0/TestDimorph/data/Australia.rda |only TestDimorph-0.4.0/TestDimorph/data/Cremains_measurements.rda |only TestDimorph-0.4.0/TestDimorph/data/Howells_R.rda |only TestDimorph-0.4.0/TestDimorph/data/Howells_V.rda |only TestDimorph-0.4.0/TestDimorph/data/Howells_summary.rda |only TestDimorph-0.4.0/TestDimorph/data/NHANES_1999.rda |only TestDimorph-0.4.0/TestDimorph/data/baboon.parms_R.rda |only TestDimorph-0.4.0/TestDimorph/data/models.rda |only TestDimorph-0.4.0/TestDimorph/man/AccuModel-deprecated.Rd | 24 TestDimorph-0.4.0/TestDimorph/man/Australia.Rd |only TestDimorph-0.4.0/TestDimorph/man/Cremains_measurements.Rd |only TestDimorph-0.4.0/TestDimorph/man/D_index.Rd |only TestDimorph-0.4.0/TestDimorph/man/HL.Rd |only TestDimorph-0.4.0/TestDimorph/man/Hedges_g.Rd |only TestDimorph-0.4.0/TestDimorph/man/Howells.Rd | 78 - TestDimorph-0.4.0/TestDimorph/man/Howells_R.Rd |only TestDimorph-0.4.0/TestDimorph/man/Howells_V.Rd |only TestDimorph-0.4.0/TestDimorph/man/Howells_summary.Rd |only TestDimorph-0.4.0/TestDimorph/man/MI_index.Rd |only TestDimorph-0.4.0/TestDimorph/man/NHANES_1999.Rd |only TestDimorph-0.4.0/TestDimorph/man/Pillai.Rd |only TestDimorph-0.4.0/TestDimorph/man/RawGen-deprecated.Rd | 24 TestDimorph-0.4.0/TestDimorph/man/Roy.Rd |only TestDimorph-0.4.0/TestDimorph/man/TestDimorph-deprecated.Rd | 35 TestDimorph-0.4.0/TestDimorph/man/Tg-deprecated.Rd | 24 TestDimorph-0.4.0/TestDimorph/man/Van_vark_raw.Rd |only TestDimorph-0.4.0/TestDimorph/man/Wilks.Rd |only TestDimorph-0.4.0/TestDimorph/man/accu_model.Rd | 201 +-- TestDimorph-0.4.0/TestDimorph/man/add_sig.Rd |only TestDimorph-0.4.0/TestDimorph/man/anova_I.Rd |only TestDimorph-0.4.0/TestDimorph/man/anova_II.Rd |only TestDimorph-0.4.0/TestDimorph/man/anova_III.Rd |only TestDimorph-0.4.0/TestDimorph/man/anova_es.Rd | 42 TestDimorph-0.4.0/TestDimorph/man/anova_main_I.Rd |only TestDimorph-0.4.0/TestDimorph/man/anova_main_II.Rd |only TestDimorph-0.4.0/TestDimorph/man/aovSS-deprecated.Rd | 24 TestDimorph-0.4.0/TestDimorph/man/aov_ss.Rd | 124 +- TestDimorph-0.4.0/TestDimorph/man/baboon.parms_R.Rd |only TestDimorph-0.4.0/TestDimorph/man/baboon.parms_df.Rd | 86 - TestDimorph-0.4.0/TestDimorph/man/baboon.parms_list.Rd | 72 - TestDimorph-0.4.0/TestDimorph/man/cbind_fill.Rd | 30 TestDimorph-0.4.0/TestDimorph/man/cbind_fill2.Rd |only TestDimorph-0.4.0/TestDimorph/man/dataframe2list.Rd | 46 TestDimorph-0.4.0/TestDimorph/man/eff_CI.Rd |only TestDimorph-0.4.0/TestDimorph/man/extract_sum.Rd | 100 - TestDimorph-0.4.0/TestDimorph/man/manova_I.Rd |only TestDimorph-0.4.0/TestDimorph/man/manova_II.Rd |only TestDimorph-0.4.0/TestDimorph/man/manova_III.Rd |only TestDimorph-0.4.0/TestDimorph/man/manova_main_I.Rd |only TestDimorph-0.4.0/TestDimorph/man/manova_main_II.Rd |only TestDimorph-0.4.0/TestDimorph/man/models.Rd |only TestDimorph-0.4.0/TestDimorph/man/multi_raw.Rd | 58 - TestDimorph-0.4.0/TestDimorph/man/multivariate.Rd | 162 +- TestDimorph-0.4.0/TestDimorph/man/pMatrix-deprecated.Rd | 52 TestDimorph-0.4.0/TestDimorph/man/pooled_cov.Rd |only TestDimorph-0.4.0/TestDimorph/man/raw_gen.Rd | 141 +- TestDimorph-0.4.0/TestDimorph/man/rown_col.Rd |only TestDimorph-0.4.0/TestDimorph/man/t_greene.Rd | 208 +-- TestDimorph-0.4.0/TestDimorph/man/t_test.Rd | 160 +- TestDimorph-0.4.0/TestDimorph/man/univariate.Rd | 158 +- TestDimorph-0.4.0/TestDimorph/man/univariate_pairwise.Rd |only TestDimorph-0.4.0/TestDimorph/man/van_vark.Rd |only TestDimorph-0.4.0/TestDimorph/tests/testthat.R | 11 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-AccuModel.R | 66 - TestDimorph-0.4.0/TestDimorph/tests/testthat/test-D_index.R |only TestDimorph-0.4.0/TestDimorph/tests/testthat/test-Hedges_g.R |only TestDimorph-0.4.0/TestDimorph/tests/testthat/test-MI_index.R |only TestDimorph-0.4.0/TestDimorph/tests/testthat/test-RawGen.R | 47 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-Tg.R | 92 + TestDimorph-0.4.0/TestDimorph/tests/testthat/test-accu_model.R | 33 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-aovSS.R | 40 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-aov_ss.R | 25 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-extract_sum.R | 22 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-multivariate.R | 88 + TestDimorph-0.4.0/TestDimorph/tests/testthat/test-pMatrix.R | 7 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-raw_gen.R | 22 TestDimorph-0.4.0/TestDimorph/tests/testthat/test-t_greene.R | 74 + TestDimorph-0.4.0/TestDimorph/tests/testthat/test-univariate.R | 59 - TestDimorph-0.4.0/TestDimorph/tests/testthat/test-van_vark.R |only 117 files changed, 2627 insertions(+), 1852 deletions(-)
Title: Projection Pursuit
Description: Package for projection pursuit (PP) with 17 methods and grand tour with 3 methods. Being that projection pursuit searches for low-dimensional linear projections in high-dimensional data structures, while grand tour is a technique used to explore multivariate statistical data through animation.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@des.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between Pursuit versions 1.0.1 dated 2020-03-24 and 1.0.2 dated 2021-01-10
DESCRIPTION | 8 +++--- MD5 | 20 ++++++++-------- NAMESPACE | 2 - R/GrandTour_English.R | 53 ++++++++++++++++++++++++++---------------- R/PP_Optimizer_English.R | 2 - R/Plot.PP_English.R | 53 +++++++++++++++++++++++++++++++++--------- man/GrandTour_English.Rd | 30 +++++++++++++----------- man/PP_Index_English.Rd | 38 ++++++++++++++++-------------- man/PP_Optimizer_English.Rd | 36 ++++++++++++++-------------- man/Plot.PP_English.Rd | 55 +++++++++++++++++++++++++------------------- man/Pursuit-package.Rd | 4 +-- 11 files changed, 180 insertions(+), 121 deletions(-)
Title: Match Cases to Controls Based on Genotype Principal Components
Description: Matches cases to controls based on genotype principal components (PC).
In order to produce better results, matches are based on the weighted
distance of PCs where the weights are equal to the % variance explained
by that PC. A weighted Mahalanobis distance metric (Kidd et al. (1987)
<DOI:10.1016/0031-3203(87)90066-5>) is used to determine matches.
Author: Derek W. Brown [aut, cre],
Mitchel J. Machiela [aut],
Timothy A. Myers [ctb],
NCI [cph, fnd]
Maintainer: Derek W. Brown <derek.brown@nih.gov>
Diff between PCAmatchR versions 0.2.1 dated 2020-08-03 and 0.3.0 dated 2021-01-10
DESCRIPTION | 8 +++--- MD5 | 19 ++++++++-------- NEWS.md |only R/match_maker.R | 8 +++--- R/plot_maker.R | 30 ++++++++++++++++++++++++- build/vignette.rds |binary inst/doc/vignette.html | 50 ++++++++++++++++++++++++++++++++++++++++++- man/PCs_1000G.Rd | 6 +++-- man/eigenvalues_1000G.Rd | 6 +++-- man/eigenvalues_all_1000G.Rd | 6 +++-- man/plot_maker.Rd | 30 ++++++++++++++++++++++++- 11 files changed, 135 insertions(+), 28 deletions(-)
Title: Scans R Projects for Vulnerable Third Party Dependencies
Description: Collects a list of your third party R packages, and
scans them with the 'OSS' Index provided by 'Sonatype', reporting back
on any vulnerabilities that are found in the third party packages you
use.
Author: Jeffry Hesse [aut],
Brittany Belle [aut],
Colin Gillespie [aut, cre] (<https://orcid.org/0000-0003-1787-0275>),
Dan Rollo [aut],
Josiah Parry [ctb],
Sonatype [cph]
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between oysteR versions 0.1.0 dated 2020-12-17 and 0.1.1 dated 2021-01-10
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NAMESPACE | 1 - NEWS.md | 3 +++ R/audit.R | 2 +- R/call_os_index.R | 8 ++++---- R/expect_secure.R | 2 +- R/get_vulnerabilities.R | 2 +- R/print.R | 13 ++++++------- man/audit_installed_r_pkgs.Rd | 2 +- man/expect_secure.Rd | 2 +- man/get_vulnerabilities.Rd | 2 +- 12 files changed, 33 insertions(+), 32 deletions(-)
Title: Multivariate Analysis
Description: Package for multivariate analysis, having functions that perform simple correspondence analysis (CA) and multiple correspondence analysis (MCA), principal components analysis (PCA), canonical correlation analysis (CCA), factorial analysis (FA), multidimensional scaling (MDS), linear (LDA) and quadratic discriminant analysis (QDA), hierarchical and non-hierarchical cluster analysis, simple and multiple linear regression, multiple factor analysis (MFA) for quantitative, qualitative, frequency (MFACT) and mixed data, biplot, scatter plot, projection pursuit (PP), grant tour method and other useful functions for the multivariate analysis.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@des.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar versions 2.1.3 dated 2020-05-22 and 2.1.4 dated 2021-01-10
DESCRIPTION | 10 +-- MD5 | 88 ++++++++++++++-------------- NAMESPACE | 8 +- R/Biplot_English.R | 40 +++++++++++- R/CCA_English.R | 36 +++++------ R/Cluster_English.R | 54 ++++++++++++++--- R/FA_English.R | 87 ++++++++------------------- R/GrandTour_English.R | 53 ++++++++++------ R/MDS_English.R | 42 +++++++++++-- R/PCA_English.R | 10 +-- R/Plot.CA_English.R | 138 +++++++++++++++++++++++++++++--------------- R/Plot.CCA_English.R | 67 ++++++++++++++++----- R/Plot.Cor_English.R |only R/Plot.FA_English.R | 61 ++++++++++++++++--- R/Plot.MFA_English.R | 74 ++++++++++++++++++++--- R/Plot.PCA_English.R | 55 +++++++++++++++-- R/Plot.PP_English.R | 49 ++++++++++++--- R/Plot.Regr_English.R | 68 ++++++++++++++++++--- R/Scatter_English.R |only man/Biplot_English.Rd | 13 +++- man/CA_English.Rd | 12 +-- man/CCA_English.Rd | 24 +++---- man/Cluster_English.Rd | 35 ++++++----- man/CoefVar_English.Rd | 8 +- man/DA_English.Rd | 32 +++++----- man/DataCoffee_English.Rd | 16 ++--- man/DataInd_English.Rd | 16 ++--- man/FA_English.Rd | 18 ++--- man/GSVD_English.Rd | 8 +- man/GrandTour_English.Rd | 30 +++++---- man/MDS_English.Rd | 14 +++- man/MFA_English.Rd | 8 +- man/MVar-package.Rd | 6 - man/NormData_English.Rd | 18 ++--- man/PCA_English.Rd | 14 ++-- man/PP_Index_English.Rd | 38 ++++++------ man/PP_Optimizer_English.Rd | 36 +++++------ man/Plor.Cor_English.Rd |only man/Plot.CA_English.Rd | 32 ++++++---- man/Plot.CCA_English.Rd | 24 ++++--- man/Plot.FA_English.Rd | 20 ++++-- man/Plot.MFA_English.Rd | 30 ++++++--- man/Plot.PCA_English.Rd | 21 ++++-- man/Plot.PP_English.Rd | 55 ++++++++++------- man/Plot.Regr_English.Rd | 39 +++++++----- man/Regr_English.Rd | 20 ++---- man/Scatter_English.Rd |only 47 files changed, 986 insertions(+), 541 deletions(-)
Title: Space-Filling Design under Maximin Distance
Description: Constructs a space-filling design under the criterion of maximum-minimum distance. Both discrete and continuous searches are provided.
Author: Furong Sun <furongs@vt.edu>, Robert B. Gramacy <rbg@vt.edu>
Maintainer: Furong Sun <furongs@vt.edu>
Diff between maximin versions 1.0-3 dated 2019-11-01 and 1.0-4 dated 2021-01-10
ChangeLog | 13 + DESCRIPTION | 10 - MD5 | 12 - R/maximin.R | 362 +++++++++++++++++++++++++++++++------------------------ R/maximin_cand.R | 148 +++++++++++++--------- man/lola_kn.Rd | 1 man/maximin.Rd | 42 ++---- 7 files changed, 340 insertions(+), 248 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 0.4.3 dated 2020-01-08 and 0.5.0 dated 2021-01-10
DESCRIPTION | 20 LICENSE | 2 MD5 | 102 +- NAMESPACE | 2 NEWS.md | 27 R/data.R | 10 R/kaya.R | 66 + R/kayadata.R | 23 R/plot_kaya.R | 5 build/partial.rdb |only build/vignette.rds |binary data/fuel_mix.rda |binary data/kaya_data.rda |binary data/td_trends.rda |binary data/td_values.rda |binary inst/WORDLIST | 1 inst/doc/kayadata.html | 306 +----- inst/doc/policy_analysis.Rmd | 2 inst/doc/policy_analysis.html | 495 +++------- man/EJ.Rd |only man/emissions_factors.Rd | 43 man/figures/README-plot-fuel-mix-1.png |binary man/figures/README-plot-kaya-1.png |binary man/figures/README-plot-kaya-world-1.png |binary man/fuel_mix.Rd | 69 - man/generation_capacity.Rd | 76 - man/get_fuel_mix.Rd | 99 +- man/get_kaya_data.Rd | 145 +- man/get_top_down_trends.Rd | 67 - man/get_top_down_values.Rd | 99 +- man/kaya_data.Rd | 85 - man/kaya_region_list.Rd | 29 man/kayadata-package.Rd | 124 +- man/lookup_region_code.Rd | 49 man/megawatts_per_quad.Rd | 36 man/mtoe.Rd | 28 man/plot_fuel_mix.Rd | 100 +- man/plot_kaya.Rd | 171 +-- man/project_top_down.Rd | 101 +- man/regions.Rd |only man/td_trends.Rd | 67 - man/td_values.Rd | 73 - tests/figs/deps.txt | 2 tests/figs/plotting-figures-of-kaya-variables/fuel-mix-collapsed.svg | 20 tests/figs/plotting-figures-of-kaya-variables/fuel-mix-colors.svg | 130 +- tests/figs/plotting-figures-of-kaya-variables/fuel-mix-full.svg | 24 tests/figs/plotting-figures-of-kaya-variables/kaya-plot-with-colors.svg | 237 ++-- tests/figs/plotting-figures-of-kaya-variables/kaya-plot.svg | 183 +-- tests/testthat/test_consistency_fuel_mix.R | 6 tests/testthat/test_consistency_mer.R | 12 tests/testthat/test_consistency_ppp.R | 12 tests/testthat/test_plot_kaya.R | 35 vignettes/policy_analysis.Rmd | 2 vignettes/policy_analysis.json |only 54 files changed, 1492 insertions(+), 1693 deletions(-)
Title: Structural Additive Cumulative Intensity Models with IV
Description: An instrumental variable estimator under structural cumulative additive intensity model is fitted, that leverages initial randomization as the IV. The estimator can be used to fit an additive hazards model under time to event data which handles treatment switching (treatment crossover) correctly. We also provide a consistent variance estimate.
Author: Andrew Ying
Maintainer: Andrew Ying <aying9339@gmail.com>
Diff between ivsacim versions 1.0 dated 2020-10-28 and 1.1 dated 2021-01-10
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NAMESPACE | 1 + R/auxiliary.R | 17 ++++++++++------- R/ivsacim.R | 21 +++++++++++---------- 5 files changed, 32 insertions(+), 27 deletions(-)
Title: Influential Case Detection Methods for Factor Analysis and
Structural Equation Models
Description: Tools for detecting and summarize influential cases that
can affect exploratory and confirmatory factor analysis models as well as
structural equation models more generally (Chalmers, 2015, <doi:10.1177/0146621615597894>;
Flora, D. B., LaBrish, C. & Chalmers, R. P., 2012, <doi:10.3389/fpsyg.2012.00055>).
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between faoutlier versions 0.7.4 dated 2020-07-10 and 0.7.6 dated 2021-01-10
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/forward.search.R | 8 ++++++-- README.md | 2 +- build/partial.rdb |binary man/forward.search.Rd | 8 ++++++-- 6 files changed, 23 insertions(+), 15 deletions(-)
Title: Epistatic Network Modelling with Forward-Time Simulation
Description: Allows for forward-in-time simulation of epistatic networks with associated
phenotypic output.
Author: Dion Detterer [aut, cre],
Paul Kwan [aut],
Cedric Gondro [aut]
Maintainer: Dion Detterer <ddettere@myune.edu.au>
Diff between epinetr versions 0.93 dated 2020-11-04 and 0.94 dated 2021-01-10
DESCRIPTION | 6 MD5 | 10 - inst/doc/epinetr-vignette.R | 3 inst/doc/epinetr-vignette.Rmd | 3 inst/doc/epinetr-vignette.html | 374 ++++++++++++++++++++--------------------- vignettes/epinetr-vignette.Rmd | 3 6 files changed, 201 insertions(+), 198 deletions(-)
Title: Collective Matrix Factorization for Recommender Systems
Description: Collective matrix factorization (a.k.a. multi-view or multi-way factorization,
Singh, Gordon, (2008) <doi:10.1145/1401890.1401969>) tries to approximate a matrix 'X' as the
product of two low-dimensional matrices aided with secondary information matrices about rows
and/or columns of 'X' which are also factorized using the same latent components.
The intended usage is for recommender systems, dimensionality reduction, and missing value imputation.
Implements extensions of the original model (Cortes, (2018) <arXiv:1809.00366>) and can produce
different factorizations such as the weighted 'implicit-feedback' model (Hu, Koren, Volinsky,
(2008) <doi:10.1109/ICDM.2008.22>), the 'weighted-lambda-regularization' model,
(Zhou, Wilkinson, Schreiber, Pan, (2008) <doi:10.1007/978-3-540-68880-8_32>),
or the enhanced model with 'implicit features' (Rendle, Zhang,
Koren, (2019) <arXiv:1905.01395>), with or without side information. Can use gradient-based
procedures or alternating-least squares procedures (Koren, Bell, Volinsky, (2009)
<doi:10.1109/MC.2009.263>), with either a Cholesky solver, a faster conjugate gradient solver
(Takacs, Pilaszy, Tikk, (2011) <doi:10.1145/2043932.2043987>), or a non-negative
coordinate descent solver (Franc, Hlavac, Navara, (2005) <doi:10.1007/11556121_50>),
providing efficient methods for sparse and dense data, and mixtures thereof.
Supports L1 and L2 regularization in the main models,
offers alternative most-popular and content-based models, and implements functionality
for cold-start recommendations and imputation of 2D data.
Author: David Cortes [aut, cre, cph], Jorge Nocedal [cph], Naoaki Okazaki [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between cmfrec versions 2.4.1 dated 2021-01-06 and 2.4.2 dated 2021-01-10
DESCRIPTION | 8 +- MD5 | 28 +++---- R/fit.R | 39 ++++++---- R/helpers.R | 2 R/other.R | 9 -- man/fit.Rd | 15 +--- man/swap.users.and.items.Rd | 9 -- src/Rwrapper.c | 44 +++++------ src/arithmetic_ansi.h | 6 + src/cblas_wrappers.c | 2 src/cmfrec.h | 27 +++---- src/collective.c | 162 ++++++++++++-------------------------------- src/common.c | 2 src/helpers.c | 18 +--- src/offsets.c | 98 ++++++++++++++------------ 15 files changed, 193 insertions(+), 276 deletions(-)
Title: Organize & Run Build Scripts Comfortably
Description: Working with reproducible reports or any other
similar projects often require to run the script that builds the
output file in a specified way. 'buildr' can help you organize, modify
and comfortably run those scripts. The package provides a set of
functions that interactively guides you through the process and that
are available as 'RStudio' Addin, meaning you can set up the keyboard
shortcuts, enabling you to choose and run the desired build script
with one keystroke anywhere anytime.
Author: Jan Netik [aut, cre] (<https://orcid.org/0000-0002-3888-3203>)
Maintainer: Jan Netik <netikja@gmail.com>
Diff between buildr versions 0.0.4 dated 2020-05-12 and 0.1.0 dated 2021-01-10
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Title: Map Layers and Spatial Utilities for British Columbia
Description: Provides access to various spatial layers for B.C., such as
administrative boundaries, natural resource management boundaries, etc.
Most layers are imported from the 'bcdata' package as 'sf' or 'Spatial' objects
through function calls in this package.
Author: Andy Teucher [aut, cre],
Stephanie Hazlitt [aut],
Sam Albers [aut],
Province of British Columbia [cph]
Maintainer: Andy Teucher <andy.teucher@gov.bc.ca>
Diff between bcmaps versions 0.18.1 dated 2020-04-29 and 1.0.0 dated 2021-01-10
DESCRIPTION | 28 MD5 | 146 ++-- NAMESPACE | 19 NEWS.md | 14 R/bc_bound.R |only R/bcmaps.R | 9 R/cache-utils.R |only R/cded.R |only R/download_data.R | 16 R/get-non-catalogue-data.R |only R/get_data.R | 76 +- R/make_shortcuts.R | 23 R/raster_by_poly.R | 68 -- R/shortcuts.R | 368 +++++------ R/sysdata.rda |only R/utils.R | 70 +- R/zzz.R | 42 - README.md | 109 +-- build/vignette.rds |binary inst/doc/add_points.R | 8 inst/doc/add_points.Rmd | 12 inst/doc/add_points.html | 363 +++------- man/airzones.Rd | 14 man/available_layers.Rd | 4 man/bc_area.Rd | 2 man/bc_bbox.Rd | 4 man/bc_bound.Rd | 16 man/bc_bound_hres.Rd | 16 man/bc_cities.Rd | 16 man/bc_neighbours.Rd | 16 man/bcmaps.Rd | 8 man/bec_colours.Rd | 2 man/cded.Rd |only man/cded_raster.Rd |only man/cded_stars.Rd |only man/census_division.Rd |only man/census_economic.Rd |only man/census_subdivision.Rd |only man/combine_nr_rd.Rd | 2 man/delete_cache.Rd |only man/ecoprovinces.Rd | 14 man/ecoregions.Rd | 14 man/ecosections.Rd | 14 man/fsa.Rd |only man/get_layer.Rd | 12 man/gw_aquifers.Rd | 14 man/health_chsa.Rd |only man/health_ha.Rd |only man/health_hsda.Rd |only man/health_lha.Rd |only man/hydrozones.Rd | 14 man/make_shortcuts.Rd | 6 man/mapsheets_250K.Rd |only man/mapsheets_50K.Rd |only man/municipalities.Rd | 14 man/nr_areas.Rd | 14 man/nr_districts.Rd | 14 man/nr_regions.Rd | 14 man/raster_by_poly.Rd | 23 man/regional_districts.Rd | 14 man/summarize_raster_list.Rd | 22 man/vrt_files.Rd |only man/vrt_info.Rd |only man/water_districts.Rd | 14 man/water_precincts.Rd | 14 man/watercourses_15M.Rd | 16 man/watercourses_5M.Rd | 16 man/wsc_drainages.Rd | 14 tests/testthat/helper.R | 11 tests/testthat/setup.R | 24 tests/testthat/teardown.R | 20 tests/testthat/test-cache-utils.R |only tests/testthat/test-cded.R |only tests/testthat/test-data_functions.R | 17 tests/testthat/test-get_big_data.R | 28 tests/testthat/test-raster_by_poly.R | 36 - tests/testthat/test-utils.R | 28 tools/readme/bc_neighbours-1.png |binary tools/readme/bec-1.png |binary tools/readme/cded-1.png |only tools/readme/plot-maps-1.png |binary tools/readme/unnamed-chunk-6-1.png |binary tools/readme/watercourses-1.png |binary vignettes/add_points.Rmd | 12 vignettes/add_points_files/figure-html/unnamed-chunk-3-1.png |binary vignettes/add_points_files/figure-html/unnamed-chunk-7-1.png |binary 86 files changed, 971 insertions(+), 953 deletions(-)
Title: ARDL, ECM and Bounds-Test for Cointegration
Description: Creates complex autoregressive distributed lag (ARDL) models
providing just the order and automatically constructs the underlying
unrestricted and restricted error correction model (ECM). It also performs
the bounds-test for cointegration as described in Pesaran et al. (2001) <doi:10.1002/jae.616> and provides the multipliers and the cointegrating
equation.
Author: Kleanthis Natsiopoulos [aut, cre]
(<https://orcid.org/0000-0003-1180-2984>),
Nickolaos Tzeremes [aut] (<https://orcid.org/0000-0002-6938-3404>)
Maintainer: Kleanthis Natsiopoulos <klnatsio@gmail.com>
Diff between ARDL versions 0.1.0 dated 2020-04-10 and 0.1.1 dated 2021-01-10
DESCRIPTION | 18 - MD5 | 28 - NEWS.md | 36 ++ R/ardl-package.R | 2 R/auto_ardl.R | 16 R/bounds_test.R | 19 + R/multipliers.R | 225 ++++++++++--- README.md | 663 ++++++++++++++++++++------------------- inst/CITATION | 12 man/ARDL-package.Rd | 7 man/auto_ardl.Rd | 16 man/bounds_f_test.Rd | 19 + man/figures/README-lr-plot-1.png |binary man/figures/logo.png |binary man/multipliers.Rd | 73 +++- 15 files changed, 711 insertions(+), 423 deletions(-)
Title: SparseStep Regression
Description: Implements the SparseStep model for solving regression
problems with a sparsity constraint on the parameters. The SparseStep
regression model was proposed in Van den Burg, Groenen, and Alfons (2017)
<arXiv:1701.06967>. In the model, a regularization term is added to the
regression problem which approximates the counting norm of the parameters.
By iteratively improving the approximation a sparse solution to the
regression problem can be obtained. In this package both the standard
SparseStep algorithm is implemented as well as a path algorithm which uses
golden section search to determine solutions with different values for the
regularization parameter.
Author: Gertjan van den Burg [aut, cre],
Patrick Groenen [ctb],
Andreas Alfons [ctb]
Maintainer: Gertjan van den Burg <gertjanvandenburg@gmail.com>
Diff between sparsestep versions 1.0.0 dated 2017-01-27 and 1.0.1 dated 2021-01-10
DESCRIPTION | 28 ++++++++++++++-------------- MD5 | 19 ++++++++++--------- NEWS.md |only R/path.sparsestep.R | 25 +++++++++++++------------ man/coef.sparsestep.Rd | 11 +++++------ man/path.sparsestep.Rd | 31 ++++++++++++++++++++++--------- man/plot.sparsestep.Rd | 11 +++++------ man/predict.sparsestep.Rd | 11 +++++------ man/print.sparsestep.Rd | 9 ++++----- man/sparsestep-package.Rd | 10 +++++----- man/sparsestep.Rd | 30 +++++++++++++++++++++--------- 11 files changed, 104 insertions(+), 81 deletions(-)
Title: Easy Web Scraping
Description: The goal of 'ralger' is to facilitate web scraping in R.
Author: Mohamed El Fodil Ihaddaden [aut, cre],
Ezekiel Ogundepo [ctb],
Romain François [ctb]
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Diff between ralger versions 2.2.0 dated 2020-11-09 and 2.2.1 dated 2021-01-10
ralger-2.2.0/ralger/inst/doc/Introduction.R |only ralger-2.2.0/ralger/inst/doc/Introduction.Rmd |only ralger-2.2.0/ralger/inst/doc/Introduction.html |only ralger-2.2.0/ralger/vignettes/Introduction.Rmd |only ralger-2.2.1/ralger/DESCRIPTION | 9 ralger-2.2.1/ralger/LICENSE | 2 ralger-2.2.1/ralger/MD5 | 56 - ralger-2.2.1/ralger/NAMESPACE | 6 ralger-2.2.1/ralger/NEWS.md | 19 ralger-2.2.1/ralger/R/images_scrap.R |only ralger-2.2.1/ralger/R/paragraphs_scrap.R | 64 - ralger-2.2.1/ralger/R/preview_images.R |only ralger-2.2.1/ralger/R/scrap.R | 43 ralger-2.2.1/ralger/R/table_scrap.R | 69 - ralger-2.2.1/ralger/R/tidy_scrap.R | 45 ralger-2.2.1/ralger/R/titles_scrap.R | 60 - ralger-2.2.1/ralger/R/weblink_scrap.R | 66 - ralger-2.2.1/ralger/README.md | 345 ++---- ralger-2.2.1/ralger/build/vignette.rds |binary ralger-2.2.1/ralger/inst/doc/Functions_Overview.R | 30 ralger-2.2.1/ralger/inst/doc/Functions_Overview.Rmd | 77 + ralger-2.2.1/ralger/inst/doc/Functions_Overview.html | 706 ++++--------- ralger-2.2.1/ralger/man/figures/logo.png |binary ralger-2.2.1/ralger/man/images_preview.Rd |only ralger-2.2.1/ralger/man/images_scrap.Rd |only ralger-2.2.1/ralger/man/table_scrap.Rd | 6 ralger-2.2.1/ralger/tests/testthat/test-images_scrap.R |only ralger-2.2.1/ralger/tests/testthat/test-paragraphs_scrap.R | 15 ralger-2.2.1/ralger/tests/testthat/test-preview_images.R |only ralger-2.2.1/ralger/tests/testthat/test-scrap.R | 11 ralger-2.2.1/ralger/tests/testthat/test-table_scrap.R | 44 ralger-2.2.1/ralger/tests/testthat/test-tidy_scrap.R | 56 + ralger-2.2.1/ralger/tests/testthat/test-weblink_scrap.R | 2 ralger-2.2.1/ralger/vignettes/Functions_Overview.Rmd | 77 + 34 files changed, 941 insertions(+), 867 deletions(-)
Title: Create Interactive Web Graphics via 'plotly.js'
Description: Create interactive web graphics from 'ggplot2' graphs and/or a custom interface to the (MIT-licensed) JavaScript library 'plotly.js' inspired by the grammar of graphics.
Author: Carson Sievert [aut, cre] (<https://orcid.org/0000-0002-4958-2844>),
Chris Parmer [aut],
Toby Hocking [aut],
Scott Chamberlain [aut],
Karthik Ram [aut],
Marianne Corvellec [aut] (<https://orcid.org/0000-0002-1994-3581>),
Pedro Despouy [aut],
Salim Brüggemann [ctb] (<https://orcid.org/0000-0002-5329-5987>),
Plotly Technologies Inc. [cph]
Maintainer: Carson Sievert <cpsievert1@gmail.com>
Diff between plotly versions 4.9.2.2 dated 2020-12-19 and 4.9.3 dated 2021-01-10
plotly-4.9.2.2/plotly/inst/examples/shiny/event_data/tests/mytest-expected |only plotly-4.9.2.2/plotly/inst/examples/shiny/event_data/tests/mytest.R |only plotly-4.9.3/plotly/DESCRIPTION | 38 plotly-4.9.3/plotly/MD5 | 815 +++++----- plotly-4.9.3/plotly/NAMESPACE | 23 plotly-4.9.3/plotly/NEWS.md | 48 plotly-4.9.3/plotly/R/add.R | 6 plotly-4.9.3/plotly/R/animate.R | 2 plotly-4.9.3/plotly/R/api_exports.R | 19 plotly-4.9.3/plotly/R/deprecated.R | 2 plotly-4.9.3/plotly/R/ggplotly.R | 725 ++++---- plotly-4.9.3/plotly/R/group2NA.R | 4 plotly-4.9.3/plotly/R/helpers.R | 6 plotly-4.9.3/plotly/R/imports.R | 4 plotly-4.9.3/plotly/R/layers2traces.R | 20 plotly-4.9.3/plotly/R/layout.R | 6 plotly-4.9.3/plotly/R/onLoad.R |only plotly-4.9.3/plotly/R/orca.R | 10 plotly-4.9.3/plotly/R/plotly.R | 63 plotly-4.9.3/plotly/R/plotly_IMAGE.R | 15 plotly-4.9.3/plotly/R/plotly_build.R | 2 plotly-4.9.3/plotly/R/plotly_data.R | 198 +- plotly-4.9.3/plotly/R/proxy.R | 2 plotly-4.9.3/plotly/R/shiny.R | 19 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plotly-4.9.3/plotly/tests/figs/subplot/subplot-reposition-shape-fixed.svg | 2 plotly-4.9.3/plotly/tests/figs/subplot/subplot-reposition-shape.svg | 2 plotly-4.9.3/plotly/tests/figs/sunburst/sunburst.svg | 2 plotly-4.9.3/plotly/tests/figs/text/text-colour.svg | 2 plotly-4.9.3/plotly/tests/figs/text/text.svg | 2 plotly-4.9.3/plotly/tests/figs/thematic |only plotly-4.9.3/plotly/tests/figs/tooltip/group-lines-hovertext.svg | 2 plotly-4.9.3/plotly/tests/figs/tooltip/heatmap-discrete-tooltip.svg | 2 plotly-4.9.3/plotly/tests/figs/tooltip/hovertext-display.svg | 2 plotly-4.9.3/plotly/tests/figs/tooltip/tooltip-date.svg | 2 plotly-4.9.3/plotly/tests/figs/tooltip/tooltip-datetime.svg | 2 plotly-4.9.3/plotly/tests/figs/treemap/advanced.svg | 2 plotly-4.9.3/plotly/tests/figs/treemap/basic.svg | 2 plotly-4.9.3/plotly/tests/figs/violin/violin-aes.svg | 2 plotly-4.9.3/plotly/tests/figs/violin/violin.svg | 2 plotly-4.9.3/plotly/tests/figs/vline/vline-multiple.svg | 2 plotly-4.9.3/plotly/tests/figs/vline/vline.svg | 2 plotly-4.9.3/plotly/tests/figs/waterfall/waterfall-simple.svg | 2 plotly-4.9.3/plotly/tests/testthat/Rplots.pdf |only plotly-4.9.3/plotly/tests/testthat/test-api.R | 2 plotly-4.9.3/plotly/tests/testthat/test-facet-axis.R |only plotly-4.9.3/plotly/tests/testthat/test-geom-errorbar-flipped-aes.R |only plotly-4.9.3/plotly/tests/testthat/test-geom-errorbar-issue-1751.R |only plotly-4.9.3/plotly/tests/testthat/test-ggplot-errorbar.R | 2 plotly-4.9.3/plotly/tests/testthat/test-ggplot-labels.R | 49 plotly-4.9.3/plotly/tests/testthat/test-ggplot-legend.R | 5 plotly-4.9.3/plotly/tests/testthat/test-ggplot-lines.R | 14 plotly-4.9.3/plotly/tests/testthat/test-ggplot-sf.R | 9 plotly-4.9.3/plotly/tests/testthat/test-ggplot-size.R | 6 plotly-4.9.3/plotly/tests/testthat/test-ggplot-theme.R | 28 plotly-4.9.3/plotly/tests/testthat/test-plotly-color.R | 30 plotly-4.9.3/plotly/tests/testthat/test-plotly-subplot.R | 9 plotly-4.9.3/plotly/tests/testthat/test-plotly-symbol.R | 11 plotly-4.9.3/plotly/tests/testthat/test-plotly.R | 51 plotly-4.9.3/plotly/tests/testthat/test-thematic.R |only plotly-4.9.3/plotly/tests/testthat/test-ticktext-linebreaks.R |only 408 files changed, 1883 insertions(+), 1499 deletions(-)
Title: Board Game Graphics
Description: Functions to make board game graphics. By default makes game diagrams, animations, and "Print & Play" layouts for the 'piecepack' <https://www.ludism.org/ppwiki> but can be configured to make graphics for other board game systems.
Author: Trevor L Davis [aut, cre],
Delapouite <https://delapouite.com/> [dtc] (Meeple shape extracted from
"Meeple icon" <https://game-icons.net/1x1/delapouite/meeple.html> /
"CC BY 3.0" <https://creativecommons.org/licenses/by/3.0/>)
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>
Diff between piecepackr versions 1.6.2 dated 2020-12-17 and 1.6.5 dated 2021-01-10
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 7 ++++++- R/basicPieceGrobs.R | 2 +- README.md | 5 ++--- man/basicPieceGrobs.Rd | 2 +- man/figures/README-go.png |binary man/figures/README-rayrender-1.png |binary man/figures/README-rgl_snapshot.png |binary tests/testthat/test-deprecated.R | 1 + tests/testthat/test-draw_component.R | 10 +++++++++- tests/testthat/test-op_transform.R | 3 +++ 12 files changed, 37 insertions(+), 21 deletions(-)
Title: Analysis of Eye Data
Description: There is no ophthalmic researcher who has not had headaches from
the handling of visual acuity entries. Different notations, untidy entries.
This shall now be a matter of the past. Eye makes it as easy as pie to work
with VA data - easy cleaning, easy conversion between
Snellen, logMAR, ETDRS letters, and qualitative visual acuity
shall never pester you again. The eye
package automates the pesky task to count number of patients and eyes,
and can help to clean data with easy re-coding for right and left eyes.
It also contains functions to help reshaping eye side specific variables
between wide and long format. Visual acuity conversion is based on
Schulze-Bonsel et al. (2006) <doi:10.1167/iovs.05-0981>,
Gregori et al. (2010) <doi:10.1097/iae.0b013e3181d87e04>,
Beck et al. (2003) <doi:10.1016/s0002-9394(02)01825-1> and
Bach (2007) <http:michaelbach.de/sci/acuity.html>.
Author: Tjebo Heeren [aut, cre] (<https://orcid.org/0000-0001-5297-2301>),
Antoine Fabri [ctb]
Maintainer: Tjebo Heeren <tjebo@gmx.de>
Diff between eye versions 1.0.0 dated 2021-01-07 and 1.0.1 dated 2021-01-10
eye-1.0.0/eye/R/check_plausible.R |only eye-1.0.0/eye/R/data.R |only eye-1.0.0/eye/data |only eye-1.0.0/eye/man/va_chart.Rd |only eye-1.0.1/eye/DESCRIPTION | 17 ++++++------- eye-1.0.1/eye/MD5 | 37 +++++++++++++--------------- eye-1.0.1/eye/NAMESPACE | 15 ----------- eye-1.0.1/eye/NEWS.md | 10 ++++++- eye-1.0.1/eye/R/checkVA.R |only eye-1.0.1/eye/R/sysdata.rda |binary eye-1.0.1/eye/R/tools.R | 11 -------- eye-1.0.1/eye/R/va.R | 33 ++++++++++++++++++++----- eye-1.0.1/eye/R/va_cleaner.R | 19 ++++++++++++++ eye-1.0.1/eye/R/va_methods.R | 39 +++++++++++++++++------------- eye-1.0.1/eye/R/which_va.R | 3 -- eye-1.0.1/eye/build/partial.rdb |binary eye-1.0.1/eye/inst/doc/eye.html | 6 ++-- eye-1.0.1/eye/man/convertQuali.Rd | 6 ++-- eye-1.0.1/eye/man/getage.Rd | 7 ----- eye-1.0.1/eye/man/plausibility_methods.Rd | 3 +- eye-1.0.1/eye/man/va.Rd | 28 ++++++++++++++++++++- eye-1.0.1/eye/man/va_methods.Rd | 1 22 files changed, 139 insertions(+), 96 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-15 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-19 0.2.0
2018-09-18 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-22 0.0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-09 0.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-17 0.1.4
2016-12-05 0.1.3
2016-05-25 0.1.2
2015-11-24 0.1.1
2015-07-19 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-05 0.9.4
2020-05-17 0.9.3
2019-07-03 0.9.2
2019-02-12 0.9.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-15 1.1.1
2019-06-18 1.1.0
2018-11-13 1.0.3
2018-06-15 1.0.2
2018-05-11 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-07 0.5.1
2019-09-12 0.5.0
2018-09-16 0.4.0
2018-06-03 0.3.0
2017-08-15 0.2.1
2017-04-29 0.2.0
2017-01-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-24 1.2.1-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-17 0.4
2018-04-27 0.3.3
Title: Semi-Supervised Classification, Regression and Clustering
Methods
Description: Providing a collection of techniques for semi-supervised
classification, regression and clustering. In semi-supervised problem, both labeled and unlabeled
data are used to train a classifier. The package includes a collection of
semi-supervised learning techniques: self-training, co-training, democratic,
decision tree, random forest, 'S3VM' ... etc, with a fairly intuitive interface
that is easy to use.
Author: Francisco Jesús Palomares Alabarce [aut, cre]
(<https://orcid.org/0000-0002-0499-7034>),
José Manuel Benítez [ctb] (<https://orcid.org/0000-0002-2346-0793>),
Isaac Triguero [ctb] (<https://orcid.org/0000-0002-0150-0651>),
Christoph Bergmeir [ctb] (<https://orcid.org/0000-0002-3665-9021>),
Mabel González [ctb] (<https://orcid.org/0000-0003-0152-444X>)
Maintainer: Francisco Jesús Palomares Alabarce <fpalomares@correo.ugr.es>
Diff between SSLR versions 0.9.3 dated 2020-10-14 and 0.9.3.1 dated 2021-01-10
DESCRIPTION | 10 +++--- MD5 | 30 +++++++++--------- NEWS.md | 8 +++++ R/GRFClassifier.R | 6 +-- demo/Democratic.R | 2 - inst/doc/classification.html | 62 --------------------------------------- inst/doc/clustering.html | 5 +-- inst/doc/fit.html | 62 --------------------------------------- inst/doc/introduction.html | 62 --------------------------------------- inst/doc/models.Rmd | 2 - inst/doc/models.html | 5 +-- inst/doc/regression.html | 62 --------------------------------------- man/GRFClassifierSSLR.Rd | 6 +-- man/democratic.Rd | 2 - tests/testthat/test-Democratic.R | 2 - vignettes/models.Rmd | 2 - 16 files changed, 49 insertions(+), 279 deletions(-)
Title: Classes and Methods for Spatial Data
Description: Classes and methods for spatial
data; the classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
Author: Edzer Pebesma [aut, cre],
Roger Bivand [aut],
Barry Rowlingson [ctb],
Virgilio Gomez-Rubio [ctb],
Robert Hijmans [ctb],
Michael Sumner [ctb],
Don MacQueen [ctb],
Jim Lemon [ctb],
Finn Lindgren [ctb],
Josh O'Brien [ctb],
Joseph O'Rourke [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sp versions 1.4-4 dated 2020-10-07 and 1.4-5 dated 2021-01-10
DESCRIPTION | 6 +++--- MD5 | 32 ++++++++++++++++---------------- R/GridTopology-methods.R | 2 +- R/SpatialGridDataFrame-methods.R | 2 +- R/SpatialLines-methods.R | 10 +++++----- R/disaggregate.R | 6 +++--- R/point.in.polygon.R | 5 +++-- R/rbind.R | 2 +- R/spplot.R | 6 +++--- R/spsample.R | 2 +- build/vignette.rds |binary data/meuse.grid_ll.rda |binary inst/doc/csdacm.pdf |binary inst/doc/intro_sp.pdf |binary inst/doc/over.pdf |binary inst/include/sp.h | 2 +- src/sp.h | 2 +- 17 files changed, 39 insertions(+), 38 deletions(-)
Title: Creating Pretty Documents from R Markdown
Description: Creating tiny yet beautiful documents and vignettes from R
Markdown. The package provides the 'html_pretty' output format as an
alternative to the 'html_document' and 'html_vignette' engines that
convert R Markdown into HTML pages. Various themes and syntax highlight
styles are supported.
Author: Yixuan Qiu [aut, cre],
Jason Long [ctb] (the Cayman, Tactile and Architect themes),
Renyuan Zou [ctb] (the Leonids theme),
Michael Rose [ctb] (the HPSTR theme),
JJ Allaire [ctb] (pandoc template for rmarkdown),
Hadley Wickham [ctb] (the html_vignette() function),
Yihui Xie [ctb] (the html_vignette() function),
Steve Matteson [ctb] (the Open Sans fonts),
Emily Eisenberg [ctb] (the KaTeX library),
Sophie Alpert [ctb] (the KaTeX library)
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between prettydoc versions 0.4.0 dated 2020-08-10 and 0.4.1 dated 2021-01-10
DESCRIPTION | 8 MD5 | 52 +-- inst/NEWS.Rd | 19 + inst/doc/architect.R | 3 inst/doc/architect.Rmd | 3 inst/doc/architect.html | 4 inst/doc/cayman.R | 3 inst/doc/cayman.Rmd | 3 inst/doc/cayman.html | 4 inst/doc/hpstr.R | 4 inst/doc/hpstr.Rmd | 7 inst/doc/hpstr.html | 33 +- inst/doc/leonids.R | 4 inst/doc/leonids.Rmd | 5 inst/doc/leonids.html | 14 inst/doc/tactile.R | 3 inst/doc/tactile.Rmd | 3 inst/doc/tactile.html | 4 inst/resources/css/hpstr.css | 498 +++++++++++++++++++++------------- inst/resources/css/hpstr.min.css | 2 inst/resources/templates/hpstr.html | 107 ++++++- inst/resources/templates/leonids.html | 101 ++++++ vignettes/architect.Rmd | 3 vignettes/cayman.Rmd | 3 vignettes/hpstr.Rmd | 7 vignettes/leonids.Rmd | 5 vignettes/tactile.Rmd | 3 27 files changed, 640 insertions(+), 265 deletions(-)
Title: Geographically Weighted Partial Correlation Coefficient
Description: Implements a geographically weighted partial correlation which is an extension from gwss() function in the 'GWmodel' package (Percival and Tsutsumida (2017) <doi:10.1553/giscience2017_01_s36>).
Author: Narumasa Tsutsumida [aut, cre]
(<https://orcid.org/0000-0002-6333-0301>),
Joseph Percival [aut]
Maintainer: Narumasa Tsutsumida <rsnaru.jp@gmail.com>
Diff between GWpcor versions 0.1.5 dated 2020-11-28 and 0.1.6 dated 2021-01-10
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/gwpcor.R | 22 ++++++++++++---------- 3 files changed, 17 insertions(+), 15 deletions(-)
Title: Genetic Association Studies
Description: Some procedures including EIGENSTRAT (a procedure for detecting and correcting
for population stratification through searching for the eigenvectors in genetic association
studies), PCoC (a procedure for correcting for population stratification through calculating
the principal coordinates and the clustering of the subjects), Tracy-Widom test (a procedure
for detecting the significant eigenvalues of a matrix), distance regression (a procedure for
detecting the association between a distance matrix and some independent variants of interest),
single-marker test (a procedure for identifying the association between the genotype at a
biallelic marker and a trait using the Wald test or the Fisher's exact test), MAX3 (a procedure
for testing for the association between a single nucleotide polymorphism and a binary phenotype
using the maximum value of the three test statistics derived for the recessive, additive, and
dominant models), nonparametric trend test (a procedure for testing for the association between
a genetic variant and a non-normal distributed quantitative trait based on the nonparametric
risk), and nonparametric MAX3 (a procedure for testing for the association between a biallelic
single nucleotide polymorphism and a quantitative trait using the maximum value of the three
nonparametric trend tests derived for the recessive, additive, and dominant models), which are
commonly used in genetic association studies. To cite this package in publications use:
Lin Wang, Wei Zhang, and Qizhai Li. AssocTests: An R Package for Genetic Association Studies.
Journal of Statistical Software. 2020; 94(5): 1-26.
Author: Lin Wang [aut],
Wei Zhang [aut],
Qizhai Li [aut],
Weicheng Zhu [ctb]
Maintainer: Lin Wang <wanglin2009@amss.ac.cn>
Diff between AssocTests versions 1.0-0 dated 2020-06-27 and 1.0-1 dated 2021-01-10
DESCRIPTION | 13 ++++++------- MD5 | 34 +++++++++++++++++----------------- R/DR_main.R | 3 +-- R/EigenStrat_main.R | 3 +-- R/MAX3_main.R | 3 +-- R/NMAX3_main.R | 3 +-- R/NPT_main.R | 3 +-- R/PCoC_main.R | 3 +-- R/SMT_main.R | 3 +-- R/TW_main.R | 3 +-- man/dr.Rd | 3 +-- man/eigenstrat.Rd | 3 +-- man/max3.Rd | 3 +-- man/nmax3.Rd | 3 +-- man/npt.Rd | 3 +-- man/pcoc.Rd | 3 +-- man/smt.Rd | 3 +-- man/tw.Rd | 3 +-- 18 files changed, 39 insertions(+), 56 deletions(-)
Title: Loading Fonts into R
Description: Loading system fonts and Google Fonts
<https://fonts.google.com/> into R, in order to
support other packages such as 'R2SWF' and 'showtext'.
Author: Yixuan Qiu and authors/contributors of the
included fonts. See file AUTHORS for details.
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between sysfonts versions 0.8.2 dated 2020-11-16 and 0.8.3 dated 2021-01-10
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- configure | 22 +++++++++++----------- configure.ac | 6 +++--- inst/NEWS.Rd | 9 +++++++++ 5 files changed, 31 insertions(+), 22 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 3.9.8 dated 2020-10-13 and 3.9.9 dated 2021-01-10
DESCRIPTION | 14 - MD5 | 84 +++++----- NAMESPACE | 4 NEWS | 60 +++++++ R/BarChart.R | 8 - R/Logit.R | 44 +++-- R/Plot.R | 20 +- R/Regression.R | 35 ++-- R/bc.zmain.R | 1 R/factors.R | 2 R/logit.z4Pred.R | 42 ++--- R/pivot.R | 27 ++- R/plt.zmain.R | 47 +++++- R/reg.z1modelBasic.R | 4 R/reg.z4Pred.R | 15 - R/simCLT.R | 14 + R/ss.zfactor.R | 6 R/style.R | 10 - R/tt.z2group.R | 2 R/zzz.R | 24 +-- inst/doc/BarChart.html | 108 ++------------ inst/doc/Customize.html | 70 --------- inst/doc/Extract.html | 84 +--------- inst/doc/FactorAnalysis.html | 72 --------- inst/doc/Histogram.html | 74 --------- inst/doc/Means.html | 82 +--------- inst/doc/Plot.html | 100 ++----------- inst/doc/ReadWrite.Rmd | 2 inst/doc/ReadWrite.html | 66 -------- inst/doc/Regression.R | 9 + inst/doc/Regression.Rmd | 46 ++++- inst/doc/Regression.html | 330 +++++++++++++++++++++++++++++-------------- inst/doc/pivot.Rmd | 3 inst/doc/pivot.html | 74 --------- man/BarChart.Rd | 4 man/Logit.Rd | 78 +++++----- man/Plot.Rd | 18 +- man/Regression.Rd | 16 +- man/pivot.Rd | 10 - man/style.Rd | 4 vignettes/ReadWrite.Rmd | 2 vignettes/Regression.Rmd | 46 ++++- vignettes/pivot.Rmd | 3 43 files changed, 761 insertions(+), 1003 deletions(-)
Title: 3D Brain Visualization
Description: In neuroscience, 'AFNI/SUMA' is a great tool to visualize 3D brain.
However, it takes efforts to interact and share the viewer to others. In
addition, 'AFNI/SUMA' doesn't support Windows platform. In the 'EEG/iEEG'
field, it's hard to have multiple cortical electrodes mapped to a template
brain for group analysis. Therefore this package is written aimed at
providing a fast, stable, interactive and easy to share tool based on 'Three.js',
a 'WebGL' engine to render 3D objects in the web browser such that we can
display brain surfaces on webpage interactively. This package translates R
objects to JavaScript objects via 'JSON' format, and provides 'R-Shiny' interface
to manipulate geometries interactively. The visualizations can also serve as
standalone widgets that can be easily shared across different platforms.
Along with 'rave', another package developed by Beauchamp's lab at Baylor
College Medicine, this package provides solutions to easily map surface
electrodes from multiple subjects to one template 141 brain.
Author: Zhengjia Wang [aut, cre, cph],
John Magnotti [aut],
Brian Metzger [aut],
Elizabeth Nesbitt [res],
Michael Beauchamp [aut, dtc, fnd]
Maintainer: Zhengjia Wang <zhengjia.wang@rice.edu>
Diff between threeBrain versions 0.1.8 dated 2020-06-23 and 0.1.9 dated 2021-01-10
threeBrain-0.1.8/threeBrain/inst/htmlwidgets/lib/bootstrap-4.1.1 |only threeBrain-0.1.8/threeBrain/inst/htmlwidgets/lib/dipterixThreeBrain-1.0.1/cm_gray.png |only threeBrain-0.1.8/threeBrain/inst/htmlwidgets/lib/dipterixThreeBrain-1.0.1/cm_viridis.png |only threeBrain-0.1.8/threeBrain/inst/htmlwidgets/lib/jQuery-3.3.1 |only threeBrain-0.1.8/threeBrain/inst/htmlwidgets/lib/webmwriter-0.2.0 |only threeBrain-0.1.9/threeBrain/DESCRIPTION | 14 threeBrain-0.1.9/threeBrain/LICENSE |only threeBrain-0.1.9/threeBrain/MD5 | 79 threeBrain-0.1.9/threeBrain/NAMESPACE | 14 threeBrain-0.1.9/threeBrain/NEWS.md | 14 threeBrain-0.1.9/threeBrain/R/aaa.R | 28 threeBrain-0.1.9/threeBrain/R/cache_fs.R | 3 threeBrain-0.1.9/threeBrain/R/cache_subject.R | 222 threeBrain-0.1.9/threeBrain/R/class_animations.R | 12 threeBrain-0.1.9/threeBrain/R/class_brain.R | 522 threeBrain-0.1.9/threeBrain/R/class_brainatlas.R |only threeBrain-0.1.9/threeBrain/R/class_brainelectrodes.R |only threeBrain-0.1.9/threeBrain/R/class_brainsurface.R |only threeBrain-0.1.9/threeBrain/R/class_brainvolume.R |only threeBrain-0.1.9/threeBrain/R/class_multibrain.R | 10 threeBrain-0.1.9/threeBrain/R/fs_brain2.R | 68 threeBrain-0.1.9/threeBrain/R/fs_import-atlas.R |only threeBrain-0.1.9/threeBrain/R/fs_import-curv.R |only threeBrain-0.1.9/threeBrain/R/fs_import-surface.R |only threeBrain-0.1.9/threeBrain/R/fs_import-t1.R |only threeBrain-0.1.9/threeBrain/R/fs_import-xform.R |only threeBrain-0.1.9/threeBrain/R/fs_import.R |only threeBrain-0.1.9/threeBrain/R/geom_abstract.R | 2 threeBrain-0.1.9/threeBrain/R/geom_datacube2.R | 14 threeBrain-0.1.9/threeBrain/R/geom_tube.R |only threeBrain-0.1.9/threeBrain/R/loaders.R | 56 threeBrain-0.1.9/threeBrain/R/suma_import-atlas.R |only threeBrain-0.1.9/threeBrain/R/suma_import-curv.R |only threeBrain-0.1.9/threeBrain/R/suma_import-surface.R |only threeBrain-0.1.9/threeBrain/R/suma_import-t1.R |only threeBrain-0.1.9/threeBrain/R/suma_import-xform.R |only threeBrain-0.1.9/threeBrain/R/threejs_brain.R | 44 threeBrain-0.1.9/threeBrain/R/utils.R | 12 threeBrain-0.1.9/threeBrain/R/zzz.R | 75 threeBrain-0.1.9/threeBrain/inst/FreeSurferColorLUT.json |only threeBrain-0.1.9/threeBrain/inst/commands |only threeBrain-0.1.9/threeBrain/inst/htmlwidgets/lib/dipterixThreeBrain-1.0.1/dipterix.css | 24 threeBrain-0.1.9/threeBrain/inst/htmlwidgets/lib/dipterixThreeBrain-1.0.1/main.js |28704 +++++----- threeBrain-0.1.9/threeBrain/inst/htmlwidgets/lib/dipterixThreeBrain-1.0.1/main.js.LICENSE.txt |only threeBrain-0.1.9/threeBrain/inst/htmlwidgets/threejs_brain.yaml | 15 threeBrain-0.1.9/threeBrain/inst/rave.yaml |only threeBrain-0.1.9/threeBrain/man/TubeGeom.Rd |only threeBrain-0.1.9/threeBrain/man/brain_setup.Rd | 11 threeBrain-0.1.9/threeBrain/man/freesurfer_brain.Rd | 4 threeBrain-0.1.9/threeBrain/man/import-fs-suma.Rd |only threeBrain-0.1.9/threeBrain/man/import_from_freesurfer.Rd | 4 threeBrain-0.1.9/threeBrain/man/template_subject.Rd | 6 52 files changed, 16036 insertions(+), 13921 deletions(-)
Title: Using Fonts More Easily in R Graphs
Description: Making it easy to use various types of fonts ('TrueType',
'OpenType', Type 1, web fonts, etc.) in R graphs, and supporting most output
formats of R graphics including PNG, PDF and SVG. Text glyphs will be converted
into polygons or raster images, hence after the plot has been created, it no
longer relies on the font files. No external software such as 'Ghostscript' is
needed to use this package.
Author: Yixuan Qiu and authors/contributors of the
included software. See file AUTHORS for details.
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between showtext versions 0.9-1 dated 2020-11-14 and 0.9-2 dated 2021-01-10
DESCRIPTION | 8 +++---- MD5 | 16 +++++++-------- configure | 22 ++++++++++----------- configure.ac | 6 ++--- inst/NEWS.Rd | 7 ++++++ inst/doc/introduction.R | 3 +- inst/doc/introduction.Rmd | 14 ++++--------- inst/doc/introduction.html | 46 ++------------------------------------------- vignettes/introduction.Rmd | 14 ++++--------- 9 files changed, 48 insertions(+), 88 deletions(-)
Title: Recommender System using Matrix Factorization
Description: R wrapper of the 'libmf' library
<https://www.csie.ntu.edu.tw/~cjlin/libmf/> for recommender
system using matrix factorization. It is typically used to
approximate an incomplete matrix using the product of two
matrices in a latent space. Other common names for this task
include "collaborative filtering", "matrix completion",
"matrix recovery", etc. High performance multi-core parallel
computing is supported in this package.
Author: Yixuan Qiu, Chih-Jen Lin, Yu-Chin Juan, Wei-Sheng Chin,
Yong Zhuang, Bo-Wen Yuan, Meng-Yuan Yang, and other
contributors. See file AUTHORS for details.
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between recosystem versions 0.4.3 dated 2020-05-18 and 0.4.4 dated 2021-01-10
DESCRIPTION | 12 ++++++------ MD5 | 18 +++++++++--------- README.md | 6 +++--- build/vignette.rds |binary inst/AUTHORS | 4 ++-- inst/NEWS.Rd | 7 +++++++ inst/doc/introduction.Rmd | 10 +++++----- inst/doc/introduction.html | 32 ++++++++++++++++++++++++-------- src/reco-utils.h | 11 ++++++++--- vignettes/introduction.Rmd | 10 +++++----- 10 files changed, 69 insertions(+), 41 deletions(-)
Title: Nonparametric Methods for Directional Data
Description: Nonparametric kernel density estimation, bandwidth selection,
and other utilities for analyzing directional data. Implements the estimator
in Bai, Rao and Zhao (1987) <doi:10.1016/0047-259X(88)90113-3>, the
cross-validation bandwidth selectors in Hall, Watson and Cabrera (1987)
<doi:10.1093/biomet/74.4.751> and the plug-in bandwidth selectors in
García-Portugués (2013) <doi:10.1214/13-ejs821>.
Author: Eduardo García-Portugués [aut, cre]
(<https://orcid.org/0000-0002-9224-4111>)
Maintainer: Eduardo García-Portugués <edgarcia@est-econ.uc3m.es>
Diff between DirStats versions 0.1.6 dated 2020-08-26 and 0.1.7 dated 2021-01-10
DESCRIPTION | 10 +++++----- MD5 | 19 ++++++++++--------- NEWS.md | 6 +++++- R/bw-cv.R | 4 ++-- R/bw-pi.R | 8 ++++---- R/kde.R | 2 +- build |only man/bic_vmf_mix.Rd | 4 ++-- man/bw_dir_cv.Rd | 4 ++-- man/bw_dir_pi.Rd | 2 +- man/kde_dir.Rd | 2 +- 11 files changed, 33 insertions(+), 28 deletions(-)
Title: A Dipping Sauce for Data Analysis and Visualizations
Description: Works as an "add-on" to packages like 'shiny', 'future', as well as
'rlang', and provides utility functions. Just like dipping sauce adding
flavors to potato chips or pita bread, 'dipsaus' for data analysis and
visualizations adds handy functions and enhancements to popular packages.
The goal is to provide simple solutions that are frequently asked for
online, such as how to synchronize 'shiny' inputs without freezing the app,
or how to get memory size on 'Linux' or 'MacOS' system. The enhancements
roughly fall into these four categories: 1. 'shiny' input widgets; 2.
high-performance computing using 'RcppParallel' and 'future' package; 3.
modify R calls and convert among numbers, strings, and other objects. 4.
utility functions to get system information such like CPU chip-set, memory
limit, etc.
Author: Zhengjia Wang [aut, cre]
Maintainer: Zhengjia Wang <zhengjia.wang@rice.edu>
Diff between dipsaus versions 0.1.1 dated 2020-10-09 and 0.1.2 dated 2021-01-10
DESCRIPTION | 6 - MD5 | 26 ++--- NEWS.md | 13 ++ R/parallels-future.R | 28 ++++-- R/parallels.R | 145 +++++++++++++++++++++++++++++++-- R/systems.R | 2 R/zzz.R | 2 build/vignette.rds |binary inst/doc/async_evaluator.html | 102 ++++++++--------------- inst/doc/r_expr_addons.html | 110 +++++++++---------------- inst/doc/shiny_customized_widgets.html | 102 ++++++++--------------- inst/doc/utility_functions.html | 104 +++++++++-------------- man/lapply_async2.Rd | 10 ++ man/make_forked_clusters.Rd | 113 ++++++++++++++++++++++++- 14 files changed, 467 insertions(+), 296 deletions(-)
Title: Home Range Estimation
Description: A collection of tools for the estimation of animals home range.
Author: Clement Calenge, contributions from Scott Fortmann-Roe
Maintainer: Clement Calenge <clement.calenge@ofb.gouv.fr>
Diff between adehabitatHR versions 0.4.18 dated 2020-02-03 and 0.4.19 dated 2021-01-10
DESCRIPTION | 8 ++++---- MD5 | 11 +++++++---- R/kernelUD.r | 2 +- build |only inst/doc/adehabitatHR.R |only inst/doc/adehabitatHR.Rnw |only inst/doc/adehabitatHR.pdf |binary vignettes/adehabitatHR.Rnw | 3 ++- 8 files changed, 14 insertions(+), 10 deletions(-)