Title: The Self-Updating Process Clustering Algorithms
Description: Implements the self-updating process clustering algorithms proposed
in Shiu and Chen (2016) <doi:10.1080/00949655.2015.1049605>.
Author: Wush Wu [aut, cre],
Shang-Ying Shiu [aut, ctb]
Maintainer: Wush Wu <wush978@gmail.com>
Diff between supc versions 0.2.3 dated 2021-09-22 and 0.2.4 dated 2021-09-24
DESCRIPTION | 6 - MD5 | 20 ++--- R/RcppExports.R | 12 ++- build/partial.rdb |binary src/RcppExports.cpp | 33 +++++++- src/clusterize.cpp | 65 ++++++++++++---- tests/test-clusterize.R | 50 +++++++++--- tests/test-config.R | 26 +++--- tests/test-dgemm.R | 37 +++++++-- tests/test-supc-random.R | 174 ++++++++++++++++++++++--------------------- tests/test-supc1.R | 186 ++++++++++++++++++++++++++--------------------- 11 files changed, 377 insertions(+), 232 deletions(-)
Title: Computerized Adaptive Testing for Survey Research
Description: Provides methods of computerized adaptive testing for survey researchers. See Montgomery and Rossiter (2020) <doi:10.1093/jssam/smz027>. Includes functionality for data fit with the classic item response methods including the latent trait model, Birnbaum`s three parameter model, the graded response, and the generalized partial credit model. Additionally, includes several ability parameter estimation and item selection routines. During item selection, all calculations are done in compiled C++ code.
Author: Jacob Montgomery [aut],
Erin Rossiter [aut, cre]
Maintainer: Erin Rossiter <erossite@nd.edu>
Diff between catSurv versions 1.3.0 dated 2020-10-06 and 1.4.0 dated 2021-09-24
DESCRIPTION | 12 +-- MD5 | 68 ++++++++++---------- NEWS.md | 12 +++ R/Cat-class.R | 8 +- R/estimateThetas.R | 2 R/simulateThetas.R | 141 ++++++++++++++++++++++++++++--------------- data/agree_cat.rda |binary data/consc_cat.rda |binary data/empathy_cat.rda |binary data/extra_cat.rda |binary data/gpcm_cat.rda |binary data/grm_cat.rda |binary data/ltm_cat.rda |binary data/mach_cat.rda |binary data/neuro_cat.rda |binary data/nfa_cat.rda |binary data/nfc_cat.rda |binary data/npi_cat.rda |binary data/nte_cat.rda |binary data/open_cat.rda |binary data/rwa_cat.rda |binary data/sdo_cat.rda |binary data/sv_conservation_cat.rda |binary data/sv_open_cat.rda |binary data/sv_selfenhance_cat.rda |binary data/sv_selftransc_cat.rda |binary data/systemizing_cat.rda |binary data/tpm_cat.rda |binary man/Cat.Rd | 4 - man/simulateThetas.Rd | 12 ++- src/Cat.cpp | 16 +++- src/Estimator.cpp | 64 ++++++++++++------- src/MAPEstimator.cpp | 21 +++--- src/MLEEstimator.cpp | 7 +- src/RcppExports.cpp | 5 + 35 files changed, 234 insertions(+), 138 deletions(-)
Title: Stereological Unfolding for Spheroidal Particles
Description: Stereological unfolding of the joint size-shape-orientation distribution of spheroidal shaped particles.
Author: Markus Baaske [aut, cre],
Felix Ballani [ctb]
Maintainer: Markus Baaske <mafr2007@gmail.com>
Diff between unfoldr versions 0.7 dated 2019-05-23 and 0.7.1 dated 2021-09-24
DESCRIPTION | 12 ++++------ MD5 | 42 +++++++++++++++++++------------------- NEWS | 5 +--- data/data15p.rda |binary man/coefficientMatrixSpheroids.Rd | 8 +++++-- man/cylinders3d.Rd | 3 -- man/data15p.Rd | 6 +++-- man/em.saltykov.Rd | 2 - man/em.spheroids.Rd | 2 - man/sectionProfiles.Rd | 2 - man/setbreaks.Rd | 3 -- man/simPoissonSystem.Rd | 31 +++++++++++++++++++--------- man/spheroids3d.Rd | 12 +++++++++- man/trivarHist.Rd | 3 -- man/unfold.Rd | 5 +--- src/GeometricPrimitives.cpp | 3 +- src/Makevars | 5 ++++ src/Rheaders.h | 2 - src/SimPoisson.cpp | 2 - src/Vector.h | 10 +++++++-- src/ellipt.cpp | 5 ++-- src/unfold.cpp | 6 +++-- 22 files changed, 102 insertions(+), 67 deletions(-)
Title: Particle Tracking and Demography
Description: Obtain population density and body size structure, using video material or image sequences as input. Functions assist in the creation of image sequences from videos, background detection and subtraction, particle identification and tracking. An artificial neural network can be trained for noise filtering. The goal is to supply accurate estimates of population size, structure and/or individual behavior, for use in evolutionary and ecological studies.
Author: Marjolein Bruijning, Marco D. Visser, Caspar A. Hallmann, Eelke Jongejans
Maintainer: Marjolein Bruijning <mbruijning@princeton.edu>
Diff between trackdem versions 0.5.2 dated 2020-02-27 and 0.6 dated 2021-09-24
DESCRIPTION | 10 +- MD5 | 46 +++++---- NAMESPACE | 2 R/help.R | 1 R/identifyFunctions.R | 151 +++++++++++++++++++++++++++---- R/resultsFunctions.R | 2 R/trackFunctions.R | 224 ++++++++++++++++++++++++++++++++++++++--------- build/vignette.rds |binary inst/doc/tutorial.Rnw | 9 + inst/doc/tutorial.pdf |binary man/createImageSeq.Rd | 21 +++- man/findMaxCost.Rd |only man/findPixelRange.Rd |only man/identifyParticles.Rd | 14 ++ man/loadImages.Rd | 9 + man/mergeTracks.Rd | 3 man/plot.TrDm.Rd | 15 ++- man/runBatch.Rd | 28 ++++- man/simulTrajec.Rd | 25 +++-- man/summary.TrDm.Rd | 3 man/testNN.Rd | 13 ++ man/trackParticles.Rd | 10 +- man/trackdem.Rd | 1 man/update.particles.Rd | 3 vignettes/tutorial.Rnw | 9 + 25 files changed, 463 insertions(+), 136 deletions(-)
Title: Joint Feature Screening via Sparse MLE
Description: Feature screening is a powerful tool in processing ultrahigh dimensional data. It attempts to screen out most irrelevant features in preparation for a more elaborate analysis. Xu and Chen (2014)<doi:10.1080/01621459.2013.879531> proposed an effective screening method SMLE, which naturally incorporates the joint effects among features in the screening process. This package provides an efficient implementation of SMLE-screening for high-dimensional linear, logistic, and Poisson models. The package also provides a function for conducting accurate post-screening feature selection based on an iterative hard-thresholding procedure and a user-specified selection criterion.
Author: Qianxiang Zang [aut, cre],
Chen Xu [aut],
Kelly Burkett [aut],
Maintainer: Qianxiang Zang <qzang023@uottawa.ca>
Diff between SMLE versions 1.2.4 dated 2021-09-09 and 2.0-0 dated 2021-09-24
DESCRIPTION | 10 - MD5 | 57 ++--- R/Gen_Data.R | 57 ++--- R/SMLE.R | 137 +++++++------ R/coef.R | 44 ++-- R/ctg_fit.R | 20 +- R/dummy.R | 256 +++++++++++++------------- R/logLik.R | 6 R/plot.selection.R | 10 - R/plot.smle.R | 16 - R/predict.R | 105 ++++++++-- R/print.R | 27 +- R/smle_select.R | 97 +++++---- R/summary.R | 14 - R/synSNP.R | 12 - R/vote.R | 32 +-- inst |only man/Gen_Data.Rd | 45 ++-- man/SMLE-package.Rd | 15 - man/SMLE.Rd | 491 +++++++++++++++++++++++++------------------------- man/coef.Rd | 60 +++--- man/logLik.Rd | 6 man/plot.selection.Rd | 10 - man/plot.smle.Rd | 16 - man/predict.Rd | 30 +-- man/print.Rd | 10 - man/smle_select.Rd | 259 +++++++++++++------------- man/summary.Rd | 8 man/synSNP.Rd | 12 - man/vote_update.Rd | 29 +- 30 files changed, 1013 insertions(+), 878 deletions(-)
Title: Bivariate Angular Mixture Models
Description: Fit (using Bayesian methods) and simulate mixtures of univariate and bivariate angular distributions. Chakraborty and Wong (2017) <arXiv:1708.07804>.
Author: Saptarshi Chakraborty,
Samuel W.K. Wong
Maintainer: Saptarshi Chakraborty <chakra.saptarshi@gmail.com>
Diff between BAMBI versions 2.3.1 dated 2021-08-12 and 2.3.2 dated 2021-09-24
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- R/all_diagnostics.R | 22 ++++++++++++++++++---- 3 files changed, 25 insertions(+), 11 deletions(-)
Title: Bayesian Graphical Models using MCMC
Description: Interface to the JAGS MCMC library.
Author: Martyn Plummer [aut, cre],
Alexey Stukalov [ctb],
Matt Denwood [ctb]
Maintainer: Martyn Plummer <martyn.plummer@gmail.com>
Diff between rjags versions 4-10 dated 2019-11-06 and 4-11 dated 2021-09-24
rjags-4-10/rjags/src/jags.cc.orig |only rjags-4-11/rjags/DESCRIPTION | 10 +++++----- rjags-4-11/rjags/MD5 | 12 ++++++------ rjags-4-11/rjags/R/windows/zzz.R | 2 +- rjags-4-11/rjags/configure | 14 +++++++++++++- rjags-4-11/rjags/configure.ac | 20 +++++++++----------- rjags-4-11/rjags/man/rjags-package.Rd | 4 ++-- rjags-4-11/rjags/src/Makevars.ucrt |only 8 files changed, 36 insertions(+), 26 deletions(-)
Title: Microbiome Regression-Based Analysis Tests
Description: Test for overall association between microbiome composition data
and phenotypes via phylogenetic kernels. The phenotype can be univariate
continuous or binary (Zhao et al. (2015) <doi:10.1016/j.ajhg.2015.04.003>),
survival outcomes (Plantinga et al. (2017) <doi:10.1186/s40168-017-0239-9>),
multivariate (Zhan et al. (2017) <doi:10.1002/gepi.22030>) and
structured phenotypes (Zhan et al. (2017) <doi:10.1111/biom.12684>).
The package can also use robust regression (unpublished work) and
integrated quantile regression (Wang et al. (2021) <doi:10.1093/bioinformatics/btab668>).
In each case, the microbiome community effect is modeled nonparametrically
through a kernel function, which can incorporate phylogenetic tree information.
Author: Anna Plantinga [aut, cre],
Nehemiah Wilson [aut, ctb],
Haotian Zheng [aut, ctb],
Tianying Wang [aut, ctb],
Xiang Zhan [aut, ctb],
Michael Wu [aut],
Ni Zhao [aut, ctb],
Jun Chen [aut]
Maintainer: Anna Plantinga <amp9@williams.edu>
Diff between MiRKAT versions 1.1.5 dated 2021-08-23 and 1.2.1 dated 2021-09-24
DESCRIPTION | 30 ++++++++++++++++-------------- MD5 | 21 ++++++++++++--------- NAMESPACE | 2 ++ R/MiRKAT_iQ.R |only R/MiRKAT_iQ_helper.R |only build/vignette.rds |binary inst/doc/MiRKAT_Vignette.html | 26 +++++++++++++------------- man/KRV.Rd | 1 + man/MMiRKAT.Rd | 2 ++ man/MiRKAT.Q.Rd | 2 +- man/MiRKAT.R.Rd | 2 ++ man/MiRKAT.iQ.Rd |only man/MiRKATS.Rd | 1 + 13 files changed, 50 insertions(+), 37 deletions(-)
Title: Manage the Life Cycle of your Package Functions
Description: Manage the life cycle of your exported functions
with shared conventions, documentation badges, and user-friendly
deprecation warnings.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between lifecycle versions 1.0.0 dated 2021-02-15 and 1.0.1 dated 2021-09-24
lifecycle-1.0.0/lifecycle/man/last_warnings.Rd |only lifecycle-1.0.1/lifecycle/DESCRIPTION | 12 +- lifecycle-1.0.1/lifecycle/MD5 | 60 +++++----- lifecycle-1.0.1/lifecycle/NAMESPACE | 6 - lifecycle-1.0.1/lifecycle/NEWS.md | 12 +- lifecycle-1.0.1/lifecycle/R/aaa.R |only lifecycle-1.0.1/lifecycle/R/badge.R | 3 lifecycle-1.0.1/lifecycle/R/deprecated.R | 5 lifecycle-1.0.1/lifecycle/R/lifecycle-package.R | 11 + lifecycle-1.0.1/lifecycle/R/lint.R |only lifecycle-1.0.1/lifecycle/R/verbosity.R | 10 - lifecycle-1.0.1/lifecycle/R/warning.R | 44 ++----- lifecycle-1.0.1/lifecycle/README.md | 2 lifecycle-1.0.1/lifecycle/build/vignette.rds |binary lifecycle-1.0.1/lifecycle/inst/doc/communicate.R | 6 - lifecycle-1.0.1/lifecycle/inst/doc/communicate.Rmd | 12 +- lifecycle-1.0.1/lifecycle/inst/doc/communicate.html | 11 + lifecycle-1.0.1/lifecycle/inst/doc/manage.R | 4 lifecycle-1.0.1/lifecycle/inst/doc/manage.Rmd | 8 - lifecycle-1.0.1/lifecycle/inst/doc/manage.html | 9 - lifecycle-1.0.1/lifecycle/inst/doc/stages.R | 2 lifecycle-1.0.1/lifecycle/inst/doc/stages.Rmd | 4 lifecycle-1.0.1/lifecycle/inst/doc/stages.html | 5 lifecycle-1.0.1/lifecycle/man/badge.Rd | 5 lifecycle-1.0.1/lifecycle/man/last_lifecycle_warnings.Rd |only lifecycle-1.0.1/lifecycle/man/lint_lifecycle.Rd |only lifecycle-1.0.1/lifecycle/tests/testthat/_snaps/badge.new.md |only lifecycle-1.0.1/lifecycle/tests/testthat/_snaps/deprecated.new.md |only lifecycle-1.0.1/lifecycle/tests/testthat/_snaps/warning.md | 27 +--- lifecycle-1.0.1/lifecycle/tests/testthat/test-verbosity.R | 15 ++ lifecycle-1.0.1/lifecycle/tests/testthat/test-warning.R | 17 -- lifecycle-1.0.1/lifecycle/vignettes/communicate.Rmd | 12 +- lifecycle-1.0.1/lifecycle/vignettes/lifecycle.html |only lifecycle-1.0.1/lifecycle/vignettes/manage.Rmd | 8 - lifecycle-1.0.1/lifecycle/vignettes/stages.Rmd | 4 35 files changed, 148 insertions(+), 166 deletions(-)
Title: An Inclusive, Unifying API for Progress Updates
Description: A minimal, unifying API for scripts and packages to report progress updates from anywhere including when using parallel processing. The package is designed such that the developer can to focus on what progress should be reported on without having to worry about how to present it. The end user has full control of how, where, and when to render these progress updates, e.g. in the terminal using utils::txtProgressBar() or progress::progress_bar(), in a graphical user interface using utils::winProgressBar(), tcltk::tkProgressBar() or shiny::withProgress(), via the speakers using beep::beepr(), or on a file system via the size of a file. Anyone can add additional, customized, progression handlers. The 'progressr' package uses R's condition framework for signaling progress updated. Because of this, progress can be reported from almost anywhere in R, e.g. from classical for and while loops, from map-reduce API:s like the lapply() family of functions, 'purrr', 'plyr', and 'foreach'. It will also work with parallel processing via the 'future' framework, e.g. future.apply::future_lapply(), furrr::future_map(), and 'foreach' with 'doFuture'. The package is compatible with Shiny applications.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between progressr versions 0.8.0 dated 2021-06-10 and 0.9.0 dated 2021-09-24
DESCRIPTION | 10 ++++----- MD5 | 46 +++++++++++++++++++++--------------------- NAMESPACE | 1 NEWS | 38 ++++++++++++++++++++++++++++++++++ R/handlers.R | 2 - R/make_progression_handler.R | 3 ++ R/progression.R | 6 ++++- R/progressor.R | 32 ++++++++++++++++++++++++----- R/utils.R | 17 +++++++++++++++ R/with_progress.R | 9 ++++---- R/zzz.R | 3 ++ build/vignette.rds |binary inst/WORDLIST | 4 +++ inst/doc/progressr-intro.html | 2 - inst/doc/progressr-intro.md | 2 - man/handler_debug.Rd | 2 - man/handler_pbmcapply.Rd | 2 - man/handler_progress.Rd | 4 +-- man/handler_rstudio.Rd | 2 - man/handler_txtprogressbar.Rd | 6 ++--- man/handlers.Rd | 4 +-- man/progressor.Rd | 4 +++ man/with_progress.Rd | 4 +-- vignettes/progressr-intro.md | 2 - 24 files changed, 151 insertions(+), 54 deletions(-)
Title: Download and Display Map Tiles
Description: To create maps from tiles, 'maptiles' downloads, composes and
displays tiles from a large number of providers (e.g. 'OpenStreetMap',
'Stamen', 'Esri', 'CARTO', or 'Thunderforest').
Author: Timothée Giraud [cre, aut] (<https://orcid.org/0000-0002-1932-3323>),
Diego Hernangómez [ctb] (<https://orcid.org/0000-0001-8457-4658>),
Robert J. Hijmans [ctb] (<https://orcid.org/0000-0001-5872-2872>),
Hugh A. Graham [ctb]
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between maptiles versions 0.2.0 dated 2021-06-09 and 0.3.0 dated 2021-09-24
DESCRIPTION | 11 +++++---- MD5 | 22 +++++++++---------- NAMESPACE | 1 NEWS.md | 8 ++++++ R/get_tiles.R | 13 ++++++++--- R/plot_tiles.R | 44 ++++++++++++++++++++++++++------------ R/sysdata.rda |binary README.md | 16 ++++++------- inst/tinytest/test_get_tiles.R | 1 man/figures/README-example-1.png |binary man/figures/README-example2-1.png |binary man/plot_tiles.Rd | 6 ++++- 12 files changed, 81 insertions(+), 41 deletions(-)
Title: Low-Level R to Java Interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.
Author: Simon Urbanek <simon.urbanek@r-project.org>
Maintainer: Simon Urbanek <simon.urbanek@r-project.org>
Diff between rJava versions 1.0-4 dated 2021-04-29 and 1.0-5 dated 2021-09-24
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Title: Visualizing and Analyzing Mass Spectrometry Related Data in
Proteomics
Description: Helps with quality checks, visualizations
and analysis of mass spectrometry data, coming from proteomics
experiments. The package is developed, tested and used at the Functional
Genomics Center Zurich <https://fgcz.ch>. We use this package
mainly for prototyping, teaching, and having fun with proteomics data.
But it can also be used to do data analysis for small scale data sets.
Author: Christian Panse [aut, cre] (<https://orcid.org/0000-0003-1975-3064>),
Jonas Grossmann [aut] (<https://orcid.org/0000-0002-6899-9020>),
Simon Barkow-Oesterreicher [ctb]
Maintainer: Christian Panse <cp@fgcz.ethz.ch>
Diff between protViz versions 0.6.8 dated 2020-05-02 and 0.7.0 dated 2021-09-24
DESCRIPTION | 12 +++---- MD5 | 70 ++++++++++++++++++++++-------------------- NAMESPACE | 4 ++ R/queue.R |only R/sysdata.rda |binary README.md | 3 - build/partial.rdb |binary build/vignette.rds |binary data/AA.RData |binary data/HexNAc.RData |binary data/averagine.RData |binary data/fetuinLFQ.RData |binary data/iRTpeptides.RData |binary data/iTRAQ.RData |binary data/msms.RData |binary data/pgLFQfeature.RData |binary data/pgLFQprot.RData |binary data/pressureProfile.RData |binary inst/NEWS.Rd | 13 ++++++- inst/doc/PTM_MarkerFinder.R | 1 inst/doc/PTM_MarkerFinder.pdf |binary inst/doc/poster.R | 1 inst/doc/poster.pdf |binary inst/doc/protViz.R | 1 inst/doc/protViz.pdf |binary man/assignPlatePosition.Rd |only man/averagine.Rd | 4 +- man/blockRandom.Rd |only man/centroid.Rd | 4 +- man/deisotoper.Rd | 2 - man/fetuinLFQ.Rd | 2 - man/fragmentIons.Rd | 2 - man/iTRAQ.Rd | 2 - man/insertSamples.Rd |only man/pgLFQfeature.Rd | 2 - man/pgLFQprot.Rd | 2 - man/pgLFQtNpq.Rd | 4 +- man/ssrc.Rd | 2 - 38 files changed, 71 insertions(+), 60 deletions(-)
Title: Thematic Cartography
Description: Create and integrate thematic maps in your workflow. This package
helps to design various cartographic representations such as proportional
symbols, choropleth or typology maps. It also offers several functions to
display layout elements that improve the graphic presentation of maps
(e.g. scale bar, north arrow, title, labels). 'mapsf' maps 'sf' objects on
'base' graphics.
Author: Timothée Giraud [cre, aut] (<https://orcid.org/0000-0002-1932-3323>),
Diego Hernangómez [ctb] (<https://orcid.org/0000-0001-8457-4658>),
Hugues Pecout [ctb],
Ian Fellows [cph] (No overlap algorithm for labels, from wordcloud
package),
Jim Lemon [cph] (Arc drawing algorithm for annotations, from plotrix
package),
Florian Zenoni [cph] (Orthographic projection visualisation)
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between mapsf versions 0.2.0 dated 2021-04-29 and 0.3.0 dated 2021-09-24
mapsf-0.2.0/mapsf/R/compassboard.R |only mapsf-0.2.0/mapsf/R/mf_map_b.R |only mapsf-0.2.0/mapsf/R/mf_map_c.R |only mapsf-0.2.0/mapsf/R/mf_map_g.R |only mapsf-0.2.0/mapsf/R/mf_map_p.R |only mapsf-0.2.0/mapsf/R/mf_map_pc.R |only mapsf-0.2.0/mapsf/R/mf_map_pt.R |only mapsf-0.2.0/mapsf/R/mf_map_r.R |only mapsf-0.2.0/mapsf/R/mf_map_s.R |only mapsf-0.2.0/mapsf/R/mf_map_sc.R |only mapsf-0.2.0/mapsf/R/mf_map_t.R |only mapsf-0.3.0/mapsf/DESCRIPTION | 10 +- mapsf-0.3.0/mapsf/MD5 | 90 ++++++++++---------- mapsf-0.3.0/mapsf/NAMESPACE | 2 mapsf-0.3.0/mapsf/NEWS.md | 14 +++ mapsf-0.3.0/mapsf/R/mf_background.R |only mapsf-0.3.0/mapsf/R/mf_base.R |only mapsf-0.3.0/mapsf/R/mf_choro.R |only mapsf-0.3.0/mapsf/R/mf_export.R | 24 +++-- mapsf-0.3.0/mapsf/R/mf_grad.R |only mapsf-0.3.0/mapsf/R/mf_init.R | 33 +++---- mapsf-0.3.0/mapsf/R/mf_layout.R | 5 - mapsf-0.3.0/mapsf/R/mf_map.R | 2 mapsf-0.3.0/mapsf/R/mf_prop.R |only mapsf-0.3.0/mapsf/R/mf_prop_choro.R |only mapsf-0.3.0/mapsf/R/mf_prop_typo.R |only mapsf-0.3.0/mapsf/R/mf_raster.R |only mapsf-0.3.0/mapsf/R/mf_symb.R |only mapsf-0.3.0/mapsf/R/mf_symb_choro.R |only mapsf-0.3.0/mapsf/R/mf_theme.R | 2 mapsf-0.3.0/mapsf/R/mf_typo.R |only mapsf-0.3.0/mapsf/R/mf_worldmap.R | 12 +- mapsf-0.3.0/mapsf/README.md | 36 ++++++-- mapsf-0.3.0/mapsf/build/vignette.rds |binary mapsf-0.3.0/mapsf/inst/doc/mapsf.R | 4 mapsf-0.3.0/mapsf/inst/doc/mapsf.Rmd | 6 - mapsf-0.3.0/mapsf/inst/doc/mapsf.html | 26 ++--- mapsf-0.3.0/mapsf/inst/img |only mapsf-0.3.0/mapsf/inst/tinytest/test_background.R |only mapsf-0.3.0/mapsf/inst/tinytest/test_export.R | 5 - mapsf-0.3.0/mapsf/inst/tinytest/test_init.R | 3 mapsf-0.3.0/mapsf/inst/tinytest/test_raster.R | 6 - mapsf-0.3.0/mapsf/man/figures/README-example4-1.png |binary mapsf-0.3.0/mapsf/man/figures/README-example5-1.png |only mapsf-0.3.0/mapsf/man/figures/mtq.png |binary mapsf-0.3.0/mapsf/man/mf_background.Rd |only mapsf-0.3.0/mapsf/man/mf_base.Rd | 4 mapsf-0.3.0/mapsf/man/mf_choro.Rd | 4 mapsf-0.3.0/mapsf/man/mf_grad.Rd | 4 mapsf-0.3.0/mapsf/man/mf_layout.Rd | 3 mapsf-0.3.0/mapsf/man/mf_prop.Rd | 4 mapsf-0.3.0/mapsf/man/mf_prop_choro.Rd | 4 mapsf-0.3.0/mapsf/man/mf_prop_typo.Rd | 4 mapsf-0.3.0/mapsf/man/mf_raster.Rd | 22 +--- mapsf-0.3.0/mapsf/man/mf_symb.Rd | 4 mapsf-0.3.0/mapsf/man/mf_symb_choro.Rd | 4 mapsf-0.3.0/mapsf/man/mf_typo.Rd | 2 mapsf-0.3.0/mapsf/src/RcppExports.cpp | 5 + mapsf-0.3.0/mapsf/vignettes/mapsf.Rmd | 6 - 59 files changed, 205 insertions(+), 145 deletions(-)
Title: Interface to the 'OpenBUGS' MCMC Software
Description: Fully-interactive R interface to the 'OpenBUGS' software for Bayesian analysis using MCMC sampling. Runs natively and stably in 32-bit R under Windows. Versions running on Linux and on 64-bit R under Windows are in "beta" status and less efficient.
Author: OpenBUGS was developed by Andrew Thomas, Dave Lunn, David Spiegelhalter and Nicky Best. R interface developed by Uwe Ligges, Sibylle Sturtz, Andrew Gelman, Gregor Gorjanc and Chris Jackson. Linux port and most recent developments by Chris Jackson.
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between BRugs versions 0.9-0 dated 2017-06-27 and 0.9-1 dated 2021-09-24
DESCRIPTION | 6 - MD5 | 6 - configure | 235 ++++++++++++++++++++++++++++------------------------------- configure.ac | 11 +- 4 files changed, 126 insertions(+), 132 deletions(-)
Title: Different Methods for Stratified Sampling
Description: Integrating a stratified structure in the population in a sampling design can considerably reduce the variance of the Horvitz-Thompson estimator. We propose in this package different methods to handle the selection of a balanced sample in stratified population. For more details see Raphaël Jauslin, Esther Eustache and Yves Tillé (2021) <arXiv:2101.05568>. The package propose also a method based on optimal transport and balanced sampling, see Raphaël Jauslin and Yves Tillé <arXiv:2105.08379>.
Author: Raphael Jauslin [aut, cre] (<https://orcid.org/0000-0003-1088-3356>),
Esther Eustache [aut],
Bardia Panahbehagh [aut],
Yves Tillé [aut] (<https://orcid.org/0000-0003-0904-5523>)
Maintainer: Raphael Jauslin <raphael.jauslin@unine.ch>
Diff between StratifiedSampling versions 0.2.0 dated 2021-05-20 and 0.3.0 dated 2021-09-24
StratifiedSampling-0.2.0/StratifiedSampling/inst/Bareequal.R |only StratifiedSampling-0.2.0/StratifiedSampling/tests |only StratifiedSampling-0.3.0/StratifiedSampling/DESCRIPTION | 8 StratifiedSampling-0.3.0/StratifiedSampling/MD5 | 51 - StratifiedSampling-0.3.0/StratifiedSampling/NAMESPACE | 49 - StratifiedSampling-0.3.0/StratifiedSampling/NEWS.md | 3 StratifiedSampling-0.3.0/StratifiedSampling/R/RcppExports.R | 85 + StratifiedSampling-0.3.0/StratifiedSampling/R/bsmatch.R | 190 ++-- StratifiedSampling-0.3.0/StratifiedSampling/R/harmonize.R | 168 +-- StratifiedSampling-0.3.0/StratifiedSampling/R/otmatch.R | 292 +++--- StratifiedSampling-0.3.0/StratifiedSampling/R/stratifiedcube.R | 1 StratifiedSampling-0.3.0/StratifiedSampling/README.md | 22 StratifiedSampling-0.3.0/StratifiedSampling/inst/doc/ot_matching.Rmd | 452 +++++----- StratifiedSampling-0.3.0/StratifiedSampling/inst/doc/ot_matching.html | 93 +- StratifiedSampling-0.3.0/StratifiedSampling/inst/test-balstrat.R |only StratifiedSampling-0.3.0/StratifiedSampling/inst/test-fbs.R |only StratifiedSampling-0.3.0/StratifiedSampling/inst/test-stratifiedcube.R |only StratifiedSampling-0.3.0/StratifiedSampling/inst/test_osod.R |only StratifiedSampling-0.3.0/StratifiedSampling/man/bsmatch.Rd | 130 +- StratifiedSampling-0.3.0/StratifiedSampling/man/c_bound.Rd |only StratifiedSampling-0.3.0/StratifiedSampling/man/harmonize.Rd | 140 +-- StratifiedSampling-0.3.0/StratifiedSampling/man/inclprob.Rd |only StratifiedSampling-0.3.0/StratifiedSampling/man/osod.Rd |only StratifiedSampling-0.3.0/StratifiedSampling/man/otmatch.Rd | 170 +-- StratifiedSampling-0.3.0/StratifiedSampling/src/RcppExports.cpp | 42 StratifiedSampling-0.3.0/StratifiedSampling/src/c_bound.cpp |only StratifiedSampling-0.3.0/StratifiedSampling/src/c_bound.h |only StratifiedSampling-0.3.0/StratifiedSampling/src/disj.h | 2 StratifiedSampling-0.3.0/StratifiedSampling/src/inclprob.cpp |only StratifiedSampling-0.3.0/StratifiedSampling/src/inclprob.h |only StratifiedSampling-0.3.0/StratifiedSampling/src/osod.cpp |only StratifiedSampling-0.3.0/StratifiedSampling/vignettes/ot_matching.Rmd | 452 +++++----- 32 files changed, 1247 insertions(+), 1103 deletions(-)
More information about StratifiedSampling at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-16 1.2
2013-12-12 1.1
2013-07-26 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-18 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-16 1.0-2
2013-07-26 1.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-24 0.1.5
Title: Connector Between 'mlr3' and 'OpenML'
Description: Provides an interface to 'OpenML.org' to list and
download machine learning data and tasks. Data and tasks can be
automatically converted to 'mlr3' tasks. For a more sophisticated
interface which also allows uploading experiments, see the 'OpenML'
package.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3oml versions 0.4.3 dated 2021-04-16 and 0.5.0 dated 2021-09-24
mlr3oml-0.4.3/mlr3oml/man/list_oml_data_sets.Rd |only mlr3oml-0.4.3/mlr3oml/man/list_oml_tasks.Rd |only mlr3oml-0.5.0/mlr3oml/DESCRIPTION | 11 - mlr3oml-0.5.0/mlr3oml/MD5 | 50 ++++--- mlr3oml-0.5.0/mlr3oml/NAMESPACE | 5 mlr3oml-0.5.0/mlr3oml/NEWS.md | 10 + mlr3oml-0.5.0/mlr3oml/R/OMLData.R | 24 ++- mlr3oml-0.5.0/mlr3oml/R/OMLTask.R | 32 ++++ mlr3oml-0.5.0/mlr3oml/R/helper_convert.R | 5 mlr3oml-0.5.0/mlr3oml/R/helper_download.R | 15 +- mlr3oml-0.5.0/mlr3oml/R/helper_query.R | 2 mlr3oml-0.5.0/mlr3oml/R/list_oml_data_sets.R | 65 +++++++--- mlr3oml-0.5.0/mlr3oml/R/list_oml_evaluations.R |only mlr3oml-0.5.0/mlr3oml/R/list_oml_flows.R |only mlr3oml-0.5.0/mlr3oml/R/list_oml_measures.R |only mlr3oml-0.5.0/mlr3oml/R/list_oml_runs.R |only mlr3oml-0.5.0/mlr3oml/R/list_oml_setups.R |only mlr3oml-0.5.0/mlr3oml/R/list_oml_tasks.R | 40 +----- mlr3oml-0.5.0/mlr3oml/R/magic_numbers.R |only mlr3oml-0.5.0/mlr3oml/README.md | 51 ------- mlr3oml-0.5.0/mlr3oml/build/partial.rdb |binary mlr3oml-0.5.0/mlr3oml/man/OMLTask.Rd | 2 mlr3oml-0.5.0/mlr3oml/man/list_oml.Rd |only mlr3oml-0.5.0/mlr3oml/src/remove_comments.cpp | 3 mlr3oml-0.5.0/mlr3oml/tests/testthat/test_OMLData.R | 7 + mlr3oml-0.5.0/mlr3oml/tests/testthat/test_OMLTask.R | 6 mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_data_sets.R | 2 mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_evaluations.R |only mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_flows.R |only mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_measures.R |only mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_runs.R |only mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_setups.R |only mlr3oml-0.5.0/mlr3oml/tests/testthat/test_list_oml_task.R | 2 33 files changed, 190 insertions(+), 142 deletions(-)
Title: Modify Data Using Externally Defined Modification Rules
Description: Data cleaning scripts typically contain a lot of 'if this change that'
type of statements. Such statements are typically condensed expert knowledge.
With this package, such 'data modifying rules' are taken out of the code and
become in stead parameters to the work flow. This allows one to maintain, document,
and reason about data modification rules as separate entities.
Author: Mark van der Loo [cre, aut],
Edwin de Jonge [aut]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between dcmodify versions 0.1.5 dated 2021-04-29 and 0.1.9 dated 2021-09-24
DESCRIPTION | 11 +- MD5 | 30 ++++--- NAMESPACE | 5 + NEWS | 4 + R/dplyr_verbs.R |only R/guard.R | 147 +++++++++++++++++++++++++++++++-------- R/modifier.R | 46 +++++++++--- R/modify.R | 32 +++----- R/validate.R |only build/vignette.rds |binary inst/doc/introduction.R | 6 + inst/doc/introduction.Rmd | 46 +++++++++--- inst/doc/introduction.html | 85 +++++++++++++++------- inst/tinytest/test_dplyr_verbs.R |only inst/tinytest/test_modifier.R | 32 +++++++- inst/tinytest/test_vectorize.R | 84 ++++++++++++++++------ man/reexports.Rd |only vignettes/introduction.Rmd | 46 +++++++++--- 18 files changed, 431 insertions(+), 143 deletions(-)
More information about GaussSuppression at CRAN
Permanent link
Title: Uncorrelated Bets via Minimum Torsion Algorithm
Description: Implements Minimum Torsion for portfolio diversification as
described in Meucci, Attilio (2013) <doi:10.2139/ssrn.2276632>.
Author: Bernardo Reckziegel [aut, cre, cph]
Maintainer: Bernardo Reckziegel <bernardo_cse@hotmail.com>
Diff between uncorbets versions 0.1.0 dated 2021-07-12 and 0.1.1 dated 2021-09-24
DESCRIPTION | 10 ++-- MD5 | 23 +++++---- NAMESPACE | 1 NEWS.md | 8 +++ R/max_effective_bets.R |only README.md | 72 +++++++++++++++++++++++++------ inst/WORDLIST | 3 - man/is_col_named.Rd | 36 +++++++-------- man/is_quadratic.Rd | 36 +++++++-------- man/max_effective_bets.Rd |only man/sqrtm.Rd | 36 +++++++-------- tests/testthat/test-effective_bets.R | 11 ++++ tests/testthat/test-max_effective_bets.R |only tests/testthat/test-sqrtm.R | 4 + 14 files changed, 157 insertions(+), 83 deletions(-)
Title: Numerical Estimation of Sparse Hessians
Description: Estimates Hessian of a scalar-valued function, and returns it
in a sparse Matrix format. The sparsity pattern must be known in advance. The
algorithm is especially efficient for hierarchical models with a large number of
heterogeneous units. See Braun, M. (2017) <doi:10.18637/jss.v082.i10>.
Author: Michael Braun [aut, cre, cph] (<https://orcid.org/0000-0003-4774-2119>)
Maintainer: Michael Braun <braunm@smu.edu>
Diff between sparseHessianFD versions 0.3.3.4 dated 2019-03-05 and 0.3.3.5 dated 2021-09-24
DESCRIPTION | 20 +++++++------ MD5 | 26 +++++++++--------- NEWS | 62 +++++++++++++++++++++---------------------- NEWS.md | 31 +++++++++++---------- R/deprecated.R | 3 +- R/sparseHessianFD-class.R | 21 ++++++-------- build/vignette.rds |binary inst/doc/sparseHessianFD.pdf |binary man/Coord.to.Pointers.Rd | 13 ++++++--- man/Matrix.to.Pointers.Rd | 9 ++++-- man/deprecated.Rd | 33 ++++++++++++++++++---- man/sparseHessianFD.Rd | 13 +++++++-- src/RcppExports.cpp | 5 +++ tests/testthat/test_mat2.R | 18 ++++++------ 14 files changed, 153 insertions(+), 101 deletions(-)
More information about sparseHessianFD at CRAN
Permanent link
Title: Processing Linear Features
Description: Assists in the manipulation and processing of linear features with the help of the 'sf' package.
Makes use of linear referencing to extract data from most shape files.
Reference for this packages methods: Albeke, S.E. et al. (2010) <doi:10.1007/s10980-010-9528-4>.
Author: Samuel Fay [aut],
William Kirkpatrick [aut],
Shannon E Albeke [aut, cre]
Maintainer: Shannon E Albeke <salbeke@uwyo.edu>
Diff between rLFT versions 1.0.0 dated 2020-06-19 and 1.0.1 dated 2021-09-24
DESCRIPTION | 12 MD5 | 18 - NAMESPACE | 1 R/BCT.R | 12 build/vignette.rds |binary inst/doc/rLFT_Introduction.html | 684 ++++++++++++++++++++++++---------------- man/rLFT-package.Rd | 4 src/RcppExports.cpp | 5 src/cCalcConvex.cpp | 224 ++++++++++++- src/openOutput.cpp | 4 10 files changed, 668 insertions(+), 296 deletions(-)
Title: The Iterated Score Regression-Based Estimation Algorithm
Description: Algorithms to handle with PCA-based missing data with high correlation. The philosophy of the package is described in Guo G. (2020) <doi:10.1080/02331888.2020.1823979>.
Author: Guangbao Guo [aut, cre] (<https://orcid.org/0000-0002-4115-6218>),
Haoyue Song [aut],
Lixing Zhu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between ISR versions 2021.09.15 dated 2021-09-15 and 2021.9.24 dated 2021-09-24
DESCRIPTION | 8 ++++---- MD5 | 8 +++++--- data/HCV.rda |binary data/PM2.5.rda |only data/review.rda |binary man/PM2.5.Rd |only 6 files changed, 9 insertions(+), 7 deletions(-)