Title: Guidelines for the use of Remote Sensing in Movement Ecology
Description: Tools for the guided selection of satellite data and environmental predictors, the combination of remote sensing and animal movement data and the mapping of resource suitabilitz. Based on the paper by Remelgado et al. (2015) <doi:10.1002/rse2.70>.
Author: Ruben Remelgado [aut, cre]
Maintainer: Ruben Remelgado <remelgado.ruben@gmail.com>
Diff between rsMove versions 0.2.6 dated 2018-10-24 and 0.2.7 dated 2018-12-11
DESCRIPTION | 23 ++++---- MD5 | 34 +++++++---- NAMESPACE | 8 ++ R/RcppExports.R |only R/hotMove.R | 25 +++----- R/hotMoveStats.R | 5 - R/imgInt.R | 105 ++++++++++++++++--------------------- README.md | 2 inst/doc/resource_suitability.R | 6 ++ inst/doc/resource_suitability.Rmd | 6 ++ inst/doc/resource_suitability.html | 72 ++++++++++++------------- man/hotMove.Rd | 5 - man/hotMoveStats.Rd | 5 - man/imgInt.Rd | 23 +++++--- man/intime.Rd |only man/intime2.Rd |only man/runmean2.Rd |only src |only vignettes/resource_suitability.Rmd | 6 ++ 19 files changed, 171 insertions(+), 154 deletions(-)
Title: Parallel Programming Tools for 'Rcpp'
Description: High level functions for parallel programming with 'Rcpp'.
For example, the 'parallelFor()' function can be used to convert the work of
a standard serial "for" loop into a parallel one and the 'parallelReduce()'
function can be used for accumulating aggregate or other values.
Author: JJ Allaire [aut],
Romain Francois [aut, cph],
Kevin Ushey [aut, cre],
Gregory Vandenbrouck [aut],
Marcus Geelnard [aut, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/),
RStudio [cph],
Intel [aut, cph] (Intel TBB library,
https://www.threadingbuildingblocks.org/),
Microsoft [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between RcppParallel versions 4.4.1 dated 2018-07-19 and 4.4.2 dated 2018-12-11
DESCRIPTION | 7 MD5 | 33 - cleanup | 2 configure | 2 inst/NEWS | 7 inst/include/tbb/concurrent_vector.h | 2 inst/include/tbb/internal/_concurrent_unordered_impl.h | 2 inst/include/tbb/tbb_allocator.h | 2 src/Makevars.in | 4 src/tbb/build/generate_tbbvars.bat | 132 ++--- src/tbb/build/test_launcher.bat | 148 ++--- src/tbb/build/vs2013/makefile.sln | 160 +++--- src/tbb/include/tbb/concurrent_vector.h | 2 src/tbb/include/tbb/internal/_concurrent_unordered_impl.h | 2 src/tbb/include/tbb/tbb_allocator.h | 2 tools/config.R | 363 ++++++++++++-- tools/config/cleanup.R |only tools/config/configure.R | 3 18 files changed, 580 insertions(+), 293 deletions(-)
Title: Parallel Distance Matrix Computation using Multiple Threads
Description: A fast parallelized alternative to R's native 'dist' function to
calculate distance matrices for continuous, binary, and multi-dimensional
input matrices, which supports a broad variety of 41 predefined distance
functions from the 'stats', 'proxy' and 'dtw' R packages, as well as user-
defined functions written in C++. For ease of use, the 'parDist' function
extends the signature of the 'dist' function and uses the same parameter
naming conventions as distance methods of existing R packages. The package
is mainly implemented in C++ and leverages the 'RcppParallel' package to
parallelize the distance computations with the help of the 'TinyThread'
library. Furthermore, the 'Armadillo' linear algebra library is used for
optimized matrix operations during distance calculations. The curiously
recurring template pattern (CRTP) technique is applied to avoid virtual
functions, which improves the Dynamic Time Warping calculations while
the implementation stays flexible enough to support different DTW step
patterns and normalization methods.
Author: Alexander Eckert [aut, cre],
Lucas Godoy [ctb],
Srikanth KS [ctb]
Maintainer: Alexander Eckert <info@alexandereckert.com>
Diff between parallelDist versions 0.2.2 dated 2018-09-24 and 0.2.3 dated 2018-12-11
parallelDist-0.2.2/parallelDist/src/Utility.cpp |only parallelDist-0.2.2/parallelDist/src/Utility.h |only parallelDist-0.2.3/parallelDist/DESCRIPTION | 16 parallelDist-0.2.3/parallelDist/MD5 | 64 parallelDist-0.2.3/parallelDist/NAMESPACE | 8 parallelDist-0.2.3/parallelDist/R/RcppExports.R | 22 parallelDist-0.2.3/parallelDist/R/parDist.R | 290 +-- parallelDist-0.2.3/parallelDist/README.md | 138 - parallelDist-0.2.3/parallelDist/build/vignette.rds |binary parallelDist-0.2.3/parallelDist/inst/NEWS.Rd | 62 parallelDist-0.2.3/parallelDist/inst/doc/parallelDist.R | 560 +++---- parallelDist-0.2.3/parallelDist/inst/doc/parallelDist.Rnw | 800 +++++----- parallelDist-0.2.3/parallelDist/inst/doc/parallelDist.pdf |binary parallelDist-0.2.3/parallelDist/man/parDist.Rd | 682 ++++---- parallelDist-0.2.3/parallelDist/src/BinaryCount.h | 47 parallelDist-0.2.3/parallelDist/src/DistanceBinary.h | 78 parallelDist-0.2.3/parallelDist/src/DistanceDTWFactory.cpp | 36 parallelDist-0.2.3/parallelDist/src/DistanceDTWFactory.h | 7 parallelDist-0.2.3/parallelDist/src/DistanceDTWGeneric.h | 13 parallelDist-0.2.3/parallelDist/src/DistanceDist.h | 116 - parallelDist-0.2.3/parallelDist/src/DistanceFactory.cpp | 18 parallelDist-0.2.3/parallelDist/src/DistanceFactory.h | 12 parallelDist-0.2.3/parallelDist/src/IDistance.h | 15 parallelDist-0.2.3/parallelDist/src/StepPattern.h | 67 parallelDist-0.2.3/parallelDist/src/Util.cpp |only parallelDist-0.2.3/parallelDist/src/Util.h |only parallelDist-0.2.3/parallelDist/src/parallelDist.cpp | 49 parallelDist-0.2.3/parallelDist/tests/testthat.R | 58 parallelDist-0.2.3/parallelDist/tests/testthat/testMatrixCustomDistances.R | 142 - parallelDist-0.2.3/parallelDist/tests/testthat/testMatrixDTWDistances.R | 232 +- parallelDist-0.2.3/parallelDist/tests/testthat/testMatrixDistances.R | 489 +++--- parallelDist-0.2.3/parallelDist/tests/testthat/testMatrixListDTWDistances.R | 220 +- parallelDist-0.2.3/parallelDist/tests/testthat/testMatrixListDistances.R | 424 ++--- parallelDist-0.2.3/parallelDist/vignettes/parallelDist.Rnw | 800 +++++----- parallelDist-0.2.3/parallelDist/vignettes/parallelDist.bib | 104 - 35 files changed, 2840 insertions(+), 2729 deletions(-)
Title: Generalized Linear Mixed Models via Monte Carlo Likelihood
Approximation
Description: Approximates the likelihood of a generalized linear mixed model using Monte Carlo likelihood approximation. Then maximizes the likelihood approximation to return maximum likelihood estimates, observed Fisher information, and other model information.
Author: Christina Knudson [aut, cre],
Charles J. Geyer [ctb],
Sydney Benson [ctb]
Maintainer: Christina Knudson <knud8583@stthomas.edu>
Diff between glmm versions 1.2.3 dated 2018-02-22 and 1.3.0 dated 2018-12-11
glmm-1.2.3/glmm/src/objfunc.c |only glmm-1.2.3/glmm/tests/basicBHtest.R |only glmm-1.2.3/glmm/tests/basicBHtest.Rout.save |only glmm-1.3.0/glmm/DESCRIPTION | 19 glmm-1.3.0/glmm/MD5 | 95 +-- glmm-1.3.0/glmm/NAMESPACE | 6 glmm-1.3.0/glmm/R/glmm.R | 600 ++++++++++---------- glmm-1.3.0/glmm/R/objfun.R | 194 ++++-- glmm-1.3.0/glmm/R/pql.R | 133 ++-- glmm-1.3.0/glmm/build/vignette.rds |binary glmm-1.3.0/glmm/inst/doc/intro.R | 8 glmm-1.3.0/glmm/inst/doc/intro.Rnw | 16 glmm-1.3.0/glmm/inst/doc/intro.pdf |binary glmm-1.3.0/glmm/inst/doc/parallel.R |only glmm-1.3.0/glmm/inst/doc/parallel.Rnw |only glmm-1.3.0/glmm/inst/doc/parallel.pdf |only glmm-1.3.0/glmm/man/coef.glmm.Rd | 11 glmm-1.3.0/glmm/man/confint.glmm.Rd | 6 glmm-1.3.0/glmm/man/glmm.Rd | 41 - glmm-1.3.0/glmm/man/logLik.Rd | 11 glmm-1.3.0/glmm/man/mcse.Rd | 11 glmm-1.3.0/glmm/man/mcvcov.Rd | 11 glmm-1.3.0/glmm/man/se.Rd | 10 glmm-1.3.0/glmm/man/varcomps.glmm.Rd | 10 glmm-1.3.0/glmm/man/vcov.glmm.Rd | 10 glmm-1.3.0/glmm/src/glmm_init.c | 11 glmm-1.3.0/glmm/src/hess.c |only glmm-1.3.0/glmm/src/myheader.h | 4 glmm-1.3.0/glmm/src/valgrad.c |only glmm-1.3.0/glmm/tests/BinBerTest.R | 8 glmm-1.3.0/glmm/tests/BinBerTest.Rout.save | 17 glmm-1.3.0/glmm/tests/binomfamtest.R | 9 glmm-1.3.0/glmm/tests/binomfamtest.Rout.save | 23 glmm-1.3.0/glmm/tests/cfamilies.Rout.save | 13 glmm-1.3.0/glmm/tests/coreTest.R |only glmm-1.3.0/glmm/tests/coreTest.Rout.save |only glmm-1.3.0/glmm/tests/distRandtests.Rout.save | 13 glmm-1.3.0/glmm/tests/elTest.R | 5 glmm-1.3.0/glmm/tests/elTest.Rout.save | 14 glmm-1.3.0/glmm/tests/families.R | 2 glmm-1.3.0/glmm/tests/families.Rout.save | 24 glmm-1.3.0/glmm/tests/familiesFiniteDiffs.Rout.save | 13 glmm-1.3.0/glmm/tests/matvecmult.Rout.save | 13 glmm-1.3.0/glmm/tests/mcseTest.R | 4 glmm-1.3.0/glmm/tests/mcseTest.Rout.save | 16 glmm-1.3.0/glmm/tests/objfunTest.R | 130 +++- glmm-1.3.0/glmm/tests/objfunTest.Rout.save | 150 +++-- glmm-1.3.0/glmm/tests/salamFiniteDiffs.R | 123 ++-- glmm-1.3.0/glmm/tests/salamFiniteDiffs.Rout.save | 147 +++- glmm-1.3.0/glmm/tests/testpiecesBH.R | 115 +++ glmm-1.3.0/glmm/tests/testpiecesBH.Rout.save | 130 +++- glmm-1.3.0/glmm/tests/testt.Rout.save | 13 glmm-1.3.0/glmm/vignettes/intro.Rnw | 16 glmm-1.3.0/glmm/vignettes/parallel.Rnw |only 54 files changed, 1346 insertions(+), 859 deletions(-)
Title: Remote Sensing Field Work Tools
Description: In remote sensing, designing a field campaign to collect ground-truth data can be a challenging task. We need to collect representative samples while accounting for issues such as budget constraints and limited accessibility created by e.g. poor infrastructure. As suggested by Olofsson et al. (2014) <doi:10.1016/j.rse.2014.02.015>, this demands the establishment of best-practices to collect ground-truth data that avoid the waste of time and funds. 'fieldRS' addresses this issue by helping scientists and practitioners design field campaigns through the identification of priority sampling sites, the extraction of potential sampling plots and the conversion of plots into consistent training and validation samples that can be used in e.g. land cover classification.
Author: Ruben Remelgado [aut, cre]
Maintainer: Ruben Remelgado <remelgado.ruben@gmail.com>
Diff between fieldRS versions 0.1.1 dated 2018-09-16 and 0.2.1 dated 2018-12-11
DESCRIPTION | 22 +++-- MD5 | 50 ++++++------- NAMESPACE | 4 + NEWS.md | 35 +++++++++ R/ccLabel.R | 40 ++++++---- R/checkOverlap.R | 13 +-- R/derivePlots.R | 2 R/ecDistance.R | 30 +++++-- R/extractFields.R | 165 ++++++++++++++++++++++++++++++------------- R/fieldRS.R | 2 R/labelCheck.R | 84 +++++++++++++++------- R/pixFilter.R |only R/poly2sample.R | 61 ++++++++++------ R/rankPlots.R | 36 +++++---- README.md | 33 +++++++- inst/doc/fieldRS.R | 19 +++-- inst/doc/fieldRS.Rmd | 31 ++++++-- inst/doc/fieldRS.html | 189 ++++++++++++++++++++++++++++++-------------------- man/ccLabel.Rd | 18 +++- man/derivePlots.Rd | 2 man/extractFields.Rd | 44 ++++++++--- man/fieldData.Rd | 2 man/labelCheck.Rd | 12 ++- man/pixFilter.Rd |only man/poly2sample.Rd | 26 ++++-- man/rankPlots.Rd | 12 +-- vignettes/fieldRS.Rmd | 31 ++++++-- 27 files changed, 649 insertions(+), 314 deletions(-)
Title: Testing for Change in C-Statistic
Description: Calculate the confidence interval and p value for change in C-statistic. The adjusted C-statistic is calculated by using formula as "Somers' Dxy rank correlation"/2+0.5. The confidence interval was calculated by using the bootstrap method. The p value was calculated by using the Z testing method. Please refer to the article of Peter Ganz et al. (2016) <doi:10.1001/jama.2016.5951>.
Author: Zhicheng Du, Yuantao Hao
Maintainer: Zhicheng Du<dgdzc@hotmail.com>
Diff between CsChange versions 0.1.4 dated 2018-06-13 and 0.1.5 dated 2018-12-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NAMESPACE | 2 +- R/CsChange.R | 32 +++++++++++++++++++++++++------- man/CsChange.Rd | 7 +++++-- 5 files changed, 38 insertions(+), 17 deletions(-)
Title: R Interface to LibBi
Description: Provides a complete R interface to LibBi, a library for Bayesian inference (see <http://libbi.org> and <doi:10.18637/jss.v067.i10> for more information). This includes functions for manipulating LibBi models, for reading and writing LibBi input/output files, for converting LibBi output to provide traces for use with the coda package, and for running LibBi from R.
Author: Pierre E. Jacob [aut],
Anthony Lee [ctb],
Lawrence M. Murray [ctb],
Sebastian Funk [aut, cre],
Sam Abbott [ctb]
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Diff between rbi versions 0.9.1 dated 2018-05-14 and 0.10.0 dated 2018-12-11
rbi-0.10.0/rbi/DESCRIPTION | 23 rbi-0.10.0/rbi/MD5 | 125 +-- rbi-0.10.0/rbi/NAMESPACE | 30 rbi-0.10.0/rbi/NEWS.md | 15 rbi-0.10.0/rbi/R/absolute_path.R |only rbi-0.10.0/rbi/R/bi_contents.R | 5 rbi-0.10.0/rbi/R/bi_generate_dataset.R | 30 rbi-0.10.0/rbi/R/bi_model.R | 460 ++++++++--- rbi-0.10.0/rbi/R/bi_open.R | 30 rbi-0.10.0/rbi/R/bi_read.R | 154 ++- rbi-0.10.0/rbi/R/bi_write.R | 337 +++++++- rbi-0.10.0/rbi/R/extract_sample.R | 11 rbi-0.10.0/rbi/R/flatten.r |only rbi-0.10.0/rbi/R/get_traces.R | 15 rbi-0.10.0/rbi/R/installed_libbi_version.r |only rbi-0.10.0/rbi/R/libbi.R | 1059 ++++++++++++++++---------- rbi-0.10.0/rbi/R/locate_libbi.r |only rbi-0.10.0/rbi/R/options.R |only rbi-0.10.0/rbi/R/rbi-package.R | 3 rbi-0.10.0/rbi/README.md | 2 rbi-0.10.0/rbi/build/vignette.rds |binary rbi-0.10.0/rbi/demo/PZ_filtering.R | 6 rbi-0.10.0/rbi/inst/SIR.bi | 51 - rbi-0.10.0/rbi/inst/doc/introduction.Rmd.rsp | 164 ++-- rbi-0.10.0/rbi/inst/doc/introduction.html | 450 ++++++----- rbi-0.10.0/rbi/man/Equals.bi_model.Rd |only rbi-0.10.0/rbi/man/Extract.bi_model.Rd | 15 rbi-0.10.0/rbi/man/Extract_assign.bi_model.Rd |only rbi-0.10.0/rbi/man/Unequals.bi_model.Rd |only rbi-0.10.0/rbi/man/absolute_path.Rd | 2 rbi-0.10.0/rbi/man/assert_files.Rd |only rbi-0.10.0/rbi/man/attach_data.Rd |only rbi-0.10.0/rbi/man/attach_file.Rd | 12 rbi-0.10.0/rbi/man/bi_contents.Rd | 4 rbi-0.10.0/rbi/man/bi_generate_dataset.Rd | 10 rbi-0.10.0/rbi/man/bi_read.Rd | 20 rbi-0.10.0/rbi/man/bi_write.Rd | 54 + rbi-0.10.0/rbi/man/create_working_folder.Rd |only rbi-0.10.0/rbi/man/enable_outputs.Rd |only rbi-0.10.0/rbi/man/extract_sample.Rd | 3 rbi-0.10.0/rbi/man/filter.Rd | 3 rbi-0.10.0/rbi/man/find_block.Rd | 3 rbi-0.10.0/rbi/man/flatten.Rd |only rbi-0.10.0/rbi/man/get_const.Rd |only rbi-0.10.0/rbi/man/get_dims.Rd |only rbi-0.10.0/rbi/man/get_traces.Rd | 2 rbi-0.10.0/rbi/man/installed_libbi_version.Rd |only rbi-0.10.0/rbi/man/locate_libbi.Rd |only rbi-0.10.0/rbi/man/optimise.Rd | 3 rbi-0.10.0/rbi/man/option_list.Rd | 2 rbi-0.10.0/rbi/man/option_string.Rd | 2 rbi-0.10.0/rbi/man/predict.Rd | 6 rbi-0.10.0/rbi/man/print_log.Rd |only rbi-0.10.0/rbi/man/read_libbi.Rd | 11 rbi-0.10.0/rbi/man/remove_lines.Rd | 5 rbi-0.10.0/rbi/man/remove_vars.Rd |only rbi-0.10.0/rbi/man/rewrite.Rd | 3 rbi-0.10.0/rbi/man/run.Rd | 39 rbi-0.10.0/rbi/man/sample.Rd | 3 rbi-0.10.0/rbi/man/sample_obs.Rd |only rbi-0.10.0/rbi/man/save_libbi.Rd | 7 rbi-0.10.0/rbi/man/summary.Rd | 5 rbi-0.10.0/rbi/man/to_input.Rd |only rbi-0.10.0/rbi/man/update.Rd |only rbi-0.10.0/rbi/man/var_names.Rd | 12 rbi-0.10.0/rbi/man/write_model.Rd | 1 rbi-0.10.0/rbi/tests/testthat/test-bi-model.r | 153 ++- rbi-0.10.0/rbi/tests/testthat/test-io.r | 220 ++++- rbi-0.10.0/rbi/tests/testthat/test-libbi.r | 158 +++ rbi-0.10.0/rbi/tests/testthat/test-samples.r | 24 rbi-0.10.0/rbi/vignettes/introduction.Rmd.rsp | 164 ++-- rbi-0.9.1/rbi/R/util_absolute_path.R |only rbi-0.9.1/rbi/R/util_nc_create_from_list.R |only rbi-0.9.1/rbi/R/util_option_list.R |only rbi-0.9.1/rbi/R/util_option_string.R |only rbi-0.9.1/rbi/man/assert_output.Rd |only rbi-0.9.1/rbi/man/netcdf_create_from_list.Rd |only rbi-0.9.1/rbi/man/obs_to_noise.Rd |only 78 files changed, 2689 insertions(+), 1227 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 de cluster hierarquico e nao hierarquico, regressao linear, analise de multiplos fatores (MFA) para dados quantitativos, qualitativos, de frequencia (MFACT) e dados mistos, 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 2.0.2 dated 2018-06-13 and 2.0.3 dated 2018-12-11
DESCRIPTION | 8 ++-- MD5 | 82 ++++++++++++++++++++--------------------- R/Biplot.R | 20 +++++----- R/GrandTour.R | 32 ++++++++-------- R/MDS.R | 16 ++++---- R/MFA.R | 98 ++++++++++++++++++++++++------------------------- R/PP_Index.R | 14 +++---- R/PP_Optimizer.R | 8 ++-- R/Plot.CA.R | 12 +++--- R/Plot.CCA.R | 8 ++-- R/Plot.FA.R | 10 ++--- R/Plot.MFA.R | 10 ++--- R/Plot.PCA.R | 12 +++--- R/Plot.PP.R | 84 ++++++++++++++++++++++-------------------- R/Plot.Regr.R | 40 ++++++++++---------- R/Regr.R | 6 +-- man/Biplot.Rd | 12 +++--- man/CA.Rd | 6 +-- man/CCA.Rd | 8 ++-- man/Cluster.Rd | 6 +-- man/CoefVar.Rd | 6 +-- man/Data_Cafes.Rd | 6 +-- man/Data_Individuos.Rd | 6 +-- man/FA.Rd | 6 +-- man/GrandTour.Rd | 6 +-- man/IM.Rd | 4 +- man/MDS.Rd | 6 +-- man/MFA.Rd | 10 ++--- man/MVar.pt-package.Rd | 4 +- man/NormData.Rd | 6 +-- man/NormTest.Rd | 12 +++--- man/PCA.Rd | 6 +-- man/PP_Index.Rd | 10 ++--- man/PP_Optimizer.Rd | 6 +-- man/Plot.CA.Rd | 10 ++--- man/Plot.CCA.Rd | 8 ++-- man/Plot.FA.Rd | 8 ++-- man/Plot.MFA.Rd | 6 +-- man/Plot.PCA.Rd | 6 +-- man/Plot.PP.Rd | 10 ++--- man/Plot.Regr.Rd | 14 +++---- man/Regr.Rd | 2 - 42 files changed, 326 insertions(+), 324 deletions(-)
Title: Meta-Analysis of Diagnostic Accuracy Studies with Several
Cutpoints
Description: Provides methods by Steinhauser et al. (2016) <DOI:10.1186/s12874-016-0196-1> for meta-analysis of diagnostic accuracy studies with several cutpoints.
Author: Gerta Rücker [aut],
Susanne Steinhauser [aut],
Srinath Kolampally [aut],
Guido Schwarzer [aut, cre]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between diagmeta versions 0.2-0 dated 2018-03-23 and 0.3-0 dated 2018-12-11
DESCRIPTION | 10 - MD5 | 22 ++- NAMESPACE | 1 NEWS | 31 +++++ R/as.data.frame.diagmeta.R |only R/diagmeta.R | 21 +++ R/diagstats.R | 113 +++++++++++++----- R/plot.diagmeta.R | 251 +++++++++++++++++++++++++++++++++++------- R/print.summary.diagmeta.R | 7 + man/as.data.frame.diagmeta.Rd |only man/diagmeta.Rd | 11 + man/diagstats.Rd | 53 +++++--- man/plot.diagmeta.Rd | 32 ++--- 13 files changed, 422 insertions(+), 130 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), hierarchical and non-hierarchical cluster analysis, linear regression, multiple factor analysis (MFA) for quantitative, qualitative, frequency (MFACT) and mixed data, 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 2.0.2 dated 2018-06-15 and 2.0.3 dated 2018-12-11
DESCRIPTION | 8 ++-- MD5 | 82 ++++++++++++++++++++++---------------------- R/Biplot_English.R | 14 +++---- R/GrandTour_English.R | 32 ++++++++--------- R/MDS_English.R | 16 ++++---- R/PP_Index_English.R | 14 +++---- R/PP_Optimizer_English.R | 8 ++-- R/Plot.CA_English.R | 12 +++--- R/Plot.CCA_English.R | 8 ++-- R/Plot.FA_English.R | 10 ++--- R/Plot.MFA_English.R | 10 ++--- R/Plot.PCA_English.R | 12 +++--- R/Plot.PP_English.R | 78 ++++++++++++++++++++++------------------- R/Plot.Regr_English.R | 40 ++++++++++----------- R/Regr_English.R | 6 +-- man/Biplot_English.Rd | 12 +++--- man/CA_English.Rd | 6 +-- man/CCA_English.Rd | 8 ++-- man/Cluster_English.Rd | 6 +-- man/CoefVar_English.Rd | 6 +-- man/DataCoffee_English.Rd | 6 +-- man/DataInd_English.Rd | 6 +-- man/DataQuan_English.Rd | 2 - man/FA_English.Rd | 6 +-- man/GrandTour_English.Rd | 6 +-- man/IM_English.Rd | 4 +- man/MDS_English.Rd | 6 +-- man/MFA_English.Rd | 6 +-- man/MVar-package.Rd | 4 +- man/NormData_English.Rd | 6 +-- man/NormTest_English.Rd | 12 +++--- man/PCA_English.Rd | 6 +-- man/PP_Index_English.Rd | 10 ++--- man/PP_Optimizer_English.Rd | 6 +-- man/Plot.CA_English.Rd | 10 ++--- man/Plot.CCA_English.Rd | 8 ++-- man/Plot.FA_English.Rd | 8 ++-- man/Plot.MFA_English.Rd | 6 +-- man/Plot.PCA_English.Rd | 6 +-- man/Plot.PP_English.Rd | 10 ++--- man/Plot.Regr_English.Rd | 14 +++---- man/Regr_English.Rd | 2 - 42 files changed, 270 insertions(+), 268 deletions(-)
Title: Quadratic Programming Solver using the 'OSQP' Library
Description: Provides bindings to the 'OSQP' solver. The 'OSQP' solver is a numerical optimization package or solving convex quadratic programs written in 'C' and based on the alternating direction method of multipliers, 'ADMM'. B. Stellato, G. Banjac, P. Goulart, A. Bemporad, S. Boyd (2018) <arXiv:1711.08013>.
Author: Bartolomeo Stellato [cre, aut, ctb, cph],
Goran Banjac [aut, ctb, cph],
Paul Goulart [aut, ctb, cph],
Stephen Boyd [aut, ctb, cph],
Eric Anderson [ctb]
Maintainer: Bartolomeo Stellato <bartolomeo.stellato@gmail.com>
Diff between osqp versions 0.4.1 dated 2018-09-27 and 0.5.0 dated 2018-12-11
DESCRIPTION | 10 MD5 | 82 ++--- NEWS.md | 4 R/RcppExports.R | 4 R/osqp.R | 12 man/osqp.Rd | 2 man/osqpSettings.Rd | 10 src/RcppExports.cpp | 12 src/osqp_solve_interface.cpp | 69 ++++ src/osqp_sources/CHANGELOG.md | 8 src/osqp_sources/README.md | 33 -- src/osqp_sources/ci/appveyor/deploy.cmd | 8 src/osqp_sources/ci/travis/deploy.sh | 4 src/osqp_sources/docs/_static/css/osqp_theme.css | 5 src/osqp_sources/docs/codegen/matlab.rst | 2 src/osqp_sources/docs/codegen/python.rst | 2 src/osqp_sources/docs/conf.py | 2 src/osqp_sources/docs/doxygen.conf | 2 src/osqp_sources/docs/examples/demo.rst | 10 src/osqp_sources/docs/examples/huber.rst | 94 +++++- src/osqp_sources/docs/examples/lasso.rst | 35 ++ src/osqp_sources/docs/examples/least-squares.rst | 32 +- src/osqp_sources/docs/examples/mpc.rst | 107 ++++++- src/osqp_sources/docs/examples/portfolio.rst | 35 ++ src/osqp_sources/docs/examples/svm.rst | 64 ++++ src/osqp_sources/docs/get_started/CC++.rst | 2 src/osqp_sources/docs/get_started/matlab.rst | 2 src/osqp_sources/docs/get_started/python.rst | 2 src/osqp_sources/docs/interfaces/index.rst | 1 src/osqp_sources/docs/interfaces/julia.rst | 9 src/osqp_sources/docs/interfaces/matlab.rst | 8 src/osqp_sources/docs/interfaces/python.rst | 9 src/osqp_sources/include/constants.h | 2 src/osqp_sources/include/osqp.h | 4 src/osqp_sources/include/types.h | 15 - src/osqp_sources/lin_sys/direct/pardiso/pardiso_interface.c | 1 src/osqp_sources/lin_sys/direct/qdldl/qdldl_interface.c | 6 src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/include/qdldl_types.h |only src/osqp_sources/src/kkt.c | 2 src/osqp_sources/src/osqp.c | 141 ++++++++-- src/osqp_sources/src/util.c | 19 + tests/testthat/test-solve-basic-qp.R | 26 + tests/testthat/test-update-matrices.R |only 43 files changed, 698 insertions(+), 199 deletions(-)
Title: Instrumental Variables
Description: Contains tools for instrumental variables estimation. Currently, non-parametric bounds, two-stage estimation and G-estimation are implemented. Balke, A. and Pearl, J. (1997) <doi:10.2307/2965583>, Vansteelandt S., Bowden J., Babanezhad M., Goetghebeur E. (2011) <doi:10.1214/11-STS360>.
Author: Arvid Sjolander, Elisabeth Dahlqwist, Torben Martinussen
Maintainer: Arvid Sjolander <arvid.sjolander@ki.se>
Diff between ivtools versions 2.0.0 dated 2018-11-05 and 2.1.0 dated 2018-12-11
ivtools-2.0.0/ivtools/man/estfunSums.Rd |only ivtools-2.1.0/ivtools/DESCRIPTION | 8 ivtools-2.1.0/ivtools/MD5 | 25 - ivtools-2.1.0/ivtools/NAMESPACE | 7 ivtools-2.1.0/ivtools/R/sourcecode.R | 374 +++++++++++++------- ivtools-2.1.0/ivtools/data |only ivtools-2.1.0/ivtools/man/VitD.Rd |only ivtools-2.1.0/ivtools/man/estfun.Rd |only ivtools-2.1.0/ivtools/man/ivah.Rd | 89 ++-- ivtools-2.1.0/ivtools/man/ivbounds.Rd | 38 +- ivtools-2.1.0/ivtools/man/ivcoxph.Rd | 83 ++-- ivtools-2.1.0/ivtools/man/ivglm.Rd | 75 ++-- ivtools-2.1.0/ivtools/man/plot.estfun.Rd |only ivtools-2.1.0/ivtools/man/plot.ivah.Rd | 4 ivtools-2.1.0/ivtools/man/print.summary.ivbounds.Rd |only ivtools-2.1.0/ivtools/man/summary.ivbounds.Rd |only ivtools-2.1.0/ivtools/man/summary.ivmod.Rd | 5 17 files changed, 426 insertions(+), 282 deletions(-)
Title: Text Extraction, Rendering and Converting of PDF Documents
Description: Utilities based on 'libpoppler' for extracting text, fonts, attachments and
metadata from a PDF file. Also supports high quality rendering of PDF documents info
PNG, JPEG, TIFF format, or into raw bitmap vectors for further processing in R.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between pdftools versions 1.8 dated 2018-05-27 and 2.0 dated 2018-12-11
DESCRIPTION | 8 ++++---- MD5 | 19 +++++++++++-------- NEWS | 6 ++++++ R/onload.R | 9 +++++++++ R/tools.R | 12 ++++++++++-- man/pdf_render_page.Rd | 1 + man/pdftools.Rd | 1 + src/Makevars.win | 12 ++++++------ src/bindings.cpp | 35 ++++++++++++++++++++++++----------- tests/testthat/gangnam.pdf |only tests/testthat/hello.pdf |only tests/testthat/test-encoding.R |only 12 files changed, 72 insertions(+), 31 deletions(-)
Title: Regression with a Large Number of Potential Explanatory
Variables
Description: Software for performing the reduction, exploratory and model selection phases of the procedure proposed by Cox, D.R. and Battey, H.S. (2017) <doi:10.1073/pnas.1703764114> for sparse regression when the number of potential explanatory variables far exceeds the sample size. The software supports linear regression, likelihood-based fitting of generalized linear regression models and the proportional hazards model fitted by partial likelihood.
Author: H. H. Hoeltgebaum
Maintainer: H. H. Hoeltgebaum <hh3015@ic.ac.uk>
Diff between HCmodelSets versions 0.2.1 dated 2018-11-27 and 1.0.0 dated 2018-12-11
DESCRIPTION | 6 ++--- MD5 | 14 ++++++------ NAMESPACE | 1 R/DGP.R | 51 ++++++++++++++++++++++++++++++++++++++++---- man/DGP.Rd | 22 ++++++++++++------ man/Exploratory.Phase.Rd | 8 +++--- man/ModelSelection.Phase.Rd | 12 +++++----- man/Reduction.Phase.Rd | 10 ++++---- 8 files changed, 87 insertions(+), 37 deletions(-)
Title: Tables with Labels and Some Useful Functions from Spreadsheets
and 'SPSS' Statistics
Description: Package provides tabulation functions with support for 'SPSS'-style
labels, multiple / nested banners, weights, multiple-response variables
and significance testing. There are facilities for nice output of tables
in 'knitr', 'Shiny', R and 'Jupyter' notebooks, '*.xlsx' files. Proper methods
for labelled variables add value labels support to base R functions and to
some functions from other packages. Additionally, the package offers
useful functions for data processing in marketing research / social
surveys - popular data transformation functions from 'SPSS' Statistics
('RECODE', 'COUNT', 'COMPUTE', 'DO IF', etc.) and 'Excel' ('COUNTIF',
'VLOOKUP', etc.). Package is intended to help people to move data
processing from 'Excel'/'SPSS' to R.
Author: Gregory Demin [aut, cre]
Maintainer: Gregory Demin <gdemin@gmail.com>
Diff between expss versions 0.8.8 dated 2018-11-11 and 0.8.10 dated 2018-12-11
expss-0.8.10/expss/DESCRIPTION | 10 expss-0.8.10/expss/MD5 | 266 expss-0.8.10/expss/NAMESPACE | 1418 - expss-0.8.10/expss/NEWS | 240 expss-0.8.10/expss/R/common_table_utils.R | 6 expss-0.8.10/expss/R/html_table.R | 995 - expss-0.8.10/expss/R/if_val.R | 1116 - expss-0.8.10/expss/R/nest.R | 9 expss-0.8.10/expss/R/significance_pvalue.R | 188 expss-0.8.10/expss/R/split_by.R |only expss-0.8.10/expss/R/xl_write.R | 1641 - expss-0.8.10/expss/build/vignette.rds |binary expss-0.8.10/expss/inst/doc/labels-support.R | 262 expss-0.8.10/expss/inst/doc/labels-support.html | 1219 - expss-0.8.10/expss/inst/doc/tables-with-labels.R | 950 - expss-0.8.10/expss/inst/doc/tables-with-labels.Rmd | 4 expss-0.8.10/expss/inst/doc/tables-with-labels.html | 9081 +++------- expss-0.8.10/expss/inst/doc/xlsx-export.R | 146 expss-0.8.10/expss/inst/doc/xlsx-export.html | 1108 - expss-0.8.10/expss/man/add_rows.Rd | 148 expss-0.8.10/expss/man/apply_labels.Rd | 122 expss-0.8.10/expss/man/as.category.Rd | 126 expss-0.8.10/expss/man/as.datatable_widget.Rd | 172 expss-0.8.10/expss/man/as.dichotomy.Rd | 234 expss-0.8.10/expss/man/as.etable.Rd | 72 expss-0.8.10/expss/man/as.labelled.Rd | 56 expss-0.8.10/expss/man/by_groups.Rd | 112 expss-0.8.10/expss/man/compare_proportions.Rd | 170 expss-0.8.10/expss/man/count_if.Rd | 646 expss-0.8.10/expss/man/criteria.Rd | 384 expss-0.8.10/expss/man/cro.Rd | 446 expss-0.8.10/expss/man/cro_fun.Rd | 552 expss-0.8.10/expss/man/default_dataset.Rd | 86 expss-0.8.10/expss/man/do_repeat.Rd | 194 expss-0.8.10/expss/man/drop_empty_rows.Rd | 142 expss-0.8.10/expss/man/experimental.Rd | 390 expss-0.8.10/expss/man/expss.Rd | 104 expss-0.8.10/expss/man/expss.options.Rd | 238 expss-0.8.10/expss/man/fctr.Rd | 94 expss-0.8.10/expss/man/fre.Rd | 158 expss-0.8.10/expss/man/htmlTable.etable.Rd | 231 expss-0.8.10/expss/man/if_na.Rd | 178 expss-0.8.10/expss/man/if_val.Rd | 460 expss-0.8.10/expss/man/info.Rd | 74 expss-0.8.10/expss/man/keep.Rd | 142 expss-0.8.10/expss/man/match_row.Rd | 136 expss-0.8.10/expss/man/merge.etable.Rd | 128 expss-0.8.10/expss/man/modify.Rd | 392 expss-0.8.10/expss/man/mrset.Rd | 118 expss-0.8.10/expss/man/na_if.Rd | 154 expss-0.8.10/expss/man/names2labels.Rd | 108 expss-0.8.10/expss/man/nest.Rd | 130 expss-0.8.10/expss/man/prepend_values.Rd | 180 expss-0.8.10/expss/man/product_test.Rd | 82 expss-0.8.10/expss/man/prop.Rd | 96 expss-0.8.10/expss/man/qc.Rd | 90 expss-0.8.10/expss/man/read_spss.Rd | 86 expss-0.8.10/expss/man/reexports.Rd | 166 expss-0.8.10/expss/man/ref.Rd | 134 expss-0.8.10/expss/man/set_caption.Rd | 96 expss-0.8.10/expss/man/sheet.Rd | 94 expss-0.8.10/expss/man/significance.Rd | 602 expss-0.8.10/expss/man/sort_asc.Rd | 106 expss-0.8.10/expss/man/split_by.Rd | 176 expss-0.8.10/expss/man/split_labels.Rd | 206 expss-0.8.10/expss/man/sum_row.Rd | 236 expss-0.8.10/expss/man/tab_sort_asc.Rd | 148 expss-0.8.10/expss/man/tables.Rd | 940 - expss-0.8.10/expss/man/text_to_columns.Rd | 126 expss-0.8.10/expss/man/unlab.Rd | 58 expss-0.8.10/expss/man/val_lab.Rd | 304 expss-0.8.10/expss/man/values2labels.Rd | 70 expss-0.8.10/expss/man/var_lab.Rd | 186 expss-0.8.10/expss/man/vars.Rd | 344 expss-0.8.10/expss/man/vectors.Rd | 248 expss-0.8.10/expss/man/vlookup.Rd | 340 expss-0.8.10/expss/man/w_mean.Rd | 246 expss-0.8.10/expss/man/where.Rd | 108 expss-0.8.10/expss/man/window_fun.Rd | 62 expss-0.8.10/expss/man/write_labels.Rd | 270 expss-0.8.10/expss/man/xl_write.Rd | 457 expss-0.8.10/expss/tests/testthat/rds/cro_mean_out.txt | 14 expss-0.8.10/expss/tests/testthat/rds/print_etable.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_2.txt | 92 expss-0.8.10/expss/tests/testthat/rds/print_etable_2_caption.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_caption.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_caption_raw.txt | 38 expss-0.8.10/expss/tests/testthat/rds/print_etable_commented_1.txt | 92 expss-0.8.10/expss/tests/testthat/rds/print_etable_commented_2.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_commented_3.txt | 92 expss-0.8.10/expss/tests/testthat/rds/print_etable_commented_caption_1.txt | 92 expss-0.8.10/expss/tests/testthat/rds/print_etable_custom_label.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_digits2.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_digits2_2.txt | 92 expss-0.8.10/expss/tests/testthat/rds/print_etable_raw.txt | 36 expss-0.8.10/expss/tests/testthat/rds/print_etable_rnotebook.txt | 410 expss-0.8.10/expss/tests/testthat/rds/print_etable_rnotebook_caption.txt | 414 expss-0.8.10/expss/tests/testthat/rds/print_etable_single_column.txt | 40 expss-0.8.10/expss/tests/testthat/rds/print_etable_unrounded.txt | 46 expss-0.8.10/expss/tests/testthat/rds/print_etable_unrounded2.txt | 92 expss-0.8.10/expss/tests/testthat/rds/print_etable_zero.txt | 2 expss-0.8.10/expss/tests/testthat/rds/print_etable_zero_columns.txt | 2 expss-0.8.10/expss/tests/testthat/rds/print_etable_zero_columns_commented.txt | 2 expss-0.8.10/expss/tests/testthat/rds/print_etable_zero_commented.txt | 2 expss-0.8.10/expss/tests/testthat/rds/print_etable_zero_rows.txt | 12 expss-0.8.10/expss/tests/testthat/rds/print_etable_zero_rows_commented.txt | 12 expss-0.8.10/expss/tests/testthat/rds/print_intermediate_table.txt | 2 expss-0.8.10/expss/tests/testthat/rds/print_labelled1.txt | 52 expss-0.8.10/expss/tests/testthat/rds/print_labelled2.txt | 54 expss-0.8.10/expss/tests/testthat/rds/print_labelled3.txt | 54 expss-0.8.10/expss/tests/testthat/rds/print_labelled4.txt | 112 expss-0.8.10/expss/tests/testthat/rds/print_labelled5.txt | 6 expss-0.8.10/expss/tests/testthat/rds/split_by1.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by10.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by11.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by12.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by13.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by14.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by15.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by16.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by17.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by18.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by19.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by2.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by3.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by4.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by5.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by6.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by7.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by8.rds |only expss-0.8.10/expss/tests/testthat/rds/split_by9.rds |only expss-0.8.10/expss/tests/testthat/rds/str_labelled1.txt | 4 expss-0.8.10/expss/tests/testthat/rds/str_labelled2.txt | 6 expss-0.8.10/expss/tests/testthat/rds/str_labelled7.txt | 6 expss-0.8.10/expss/tests/testthat/test_dichotomy.R | 2 expss-0.8.10/expss/tests/testthat/test_nest.R | 160 expss-0.8.10/expss/tests/testthat/test_split_by.R |only expss-0.8.10/expss/tests/testthat/test_xl_write.R | 847 expss-0.8.10/expss/vignettes/tables-with-labels.Rmd | 4 expss-0.8.8/expss/R/split_separate.R |only expss-0.8.8/expss/tests/testthat/rds/split_separate1.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate2.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate3.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate4.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate5.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate6.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate7.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate8.rds |only expss-0.8.8/expss/tests/testthat/rds/split_separate9.rds |only expss-0.8.8/expss/tests/testthat/test_split_separate.R |only 150 files changed, 15944 insertions(+), 19036 deletions(-)
Title: Gaussian Parsimonious Clustering Models with Covariates
Description: Clustering via parsimonious Gaussian Mixtures of Experts using the MoEClust models introduced by Murphy and Murphy (2017) <arXiv:1711.05632>. This package fits finite Gaussian mixture models with a formula interface for supplying gating and/or expert network covariates using a range of parsimonious covariance parameterisations via the EM/CEM algorithm. Visualisation of the results of such models using generalised pairs plots is also facilitated.
Author: Keefe Murphy [aut, cre],
Thomas Brendan Murphy [ctb]
Maintainer: Keefe Murphy <keefe.murphy@ucd.ie>
Diff between MoEClust versions 1.2.0 dated 2018-08-24 and 1.2.1 dated 2018-12-11
DESCRIPTION | 12 MD5 | 53 ++- NAMESPACE | 2 R/Functions.R | 645 +++++++++++++++++++++++++++++++----------------- R/MoEClust.R | 8 R/Plotting_Functions.R | 125 +++++---- README.md | 4 inst/CITATION | 4 inst/NEWS.md | 15 + inst/doc/MoEClust.R | 3 inst/doc/MoEClust.Rmd | 12 inst/doc/MoEClust.html | 98 +++---- man/MoEClust-package.Rd | 8 man/MoE_clust.Rd | 27 +- man/MoE_compare.Rd | 3 man/MoE_control.Rd | 32 +- man/MoE_crit.Rd | 2 man/MoE_cstep.Rd |only man/MoE_dens.Rd | 6 man/MoE_estep.Rd | 10 man/MoE_gpairs.Rd | 9 man/MoE_plotCrit.Rd | 4 man/MoE_plotGate.Rd | 12 man/MoE_plotLogLik.Rd | 4 man/aitken.Rd | 6 man/drop_constants.Rd | 7 man/plot.MoEClust.Rd | 2 vignettes/MoEClust.Rmd | 12 28 files changed, 702 insertions(+), 423 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description: Contains functions for multiple imputation which
complements existing functionality in R.
In particular, several imputation methods for the
mice package (van Buuren & Groothuis-Oudshoorn, 2011,
<doi:10.18637/jss.v045.i03>) are included.
Main features of the miceadds package include
plausible value imputation (Mislevy, 1991,
<doi:10.1007/BF02294457>), multilevel imputation for
variables at any level or with any number of hierarchical
and non-hierarchical levels (Grund, Luedtke & Robitzsch,
2018, <doi:10.1177/1094428117703686>; van Buuren, 2018,
Ch.7, <doi:10.1201/9780429492259>), imputation using
partial least squares (PLS) for high dimensional
predictors (Robitzsch, Pham & Yanagida, 2016),
and nested multiple imputation (Rubin, 2003,
<doi:10.1111/1467-9574.00217>).
Author: Alexander Robitzsch [aut, cre], Simon Grund [aut],
Thorsten Henke [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 2.15-22 dated 2018-10-19 and 3.0-16 dated 2018-12-11
DESCRIPTION | 16 +++---- MD5 | 61 +++++++++++++++--------------- NAMESPACE | 1 R/RcppExports.R | 6 +- R/create_interactions.R | 22 ++-------- R/glm.cluster.R | 23 ++++++----- R/lm.cluster.R | 15 ++++--- R/load.data.R | 8 +-- R/load.files.R |only R/mice.impute.2l.latentgroupmean.mcmc.R | 52 ++++++++++++------------- R/mice.impute.2l.latentgroupmean.ml.R | 16 +++---- R/mice.impute.2l.pls2.R | 10 ++-- R/mice.impute.plausible.values.R | 2 R/mice.impute.pls.R | 36 ++--------------- R/mice_imputation_create_interactions.R | 11 ++--- R/mice_imputation_pls_do_impute.R | 14 +++++- R/quantile0.R | 5 +- R/rcpp_create_header_file.R | 3 - R/scan.vec.R |only R/scan0.R | 14 ------ R/tw.imputation.R | 58 +++++++++++++++------------- R/tw.mcmc.imputation.R | 26 ++++++------ R/write.fwf2.R | 4 - build |only inst/NEWS | 14 ++++++ man/load.data.Rd | 11 ++++- man/miceadds-package.Rd | 41 ++++++++------------ man/pca.covridge.Rd | 5 -- man/scan.vector.Rd | 5 +- src/RcppExports.cpp | 12 ++--- src/miceadds_rcpp_create_interactions.cpp | 6 +- src/miceadds_rcpp_ml_mcmc_sub.cpp | 2 src/miceadds_rcpp_ml_mcmc_sub.h | 40 +++++++++---------- 33 files changed, 266 insertions(+), 273 deletions(-)
Title: Tools for Survey Statistics in Educational Assessment
Description: Contains tools for survey statistics (especially in educational
assessment) for datasets with replication designs (jackknife,
bootstrap, replicate weights; see Kolenikov, 2010;
Pfefferman & Rao, 2009a, 2009b, <doi:10.1016/S0169-7161(09)70003-3>,
<doi:10.1016/S0169-7161(09)70037-9>); Shao, 1996,
<doi:10.1080/02331889708802523>).
Descriptive statistics, linear and logistic regression,
path models for manifest variables with measurement error
correction and two-level hierarchical regressions for weighted
samples are included. Statistical inference can be conducted for
multiply imputed datasets and nested multiply imputed datasets
and is in particularly suited for the analysis of plausible values
(for details see George, Oberwimmer & Itzlinger-Bruneforth, 2016;
Bruneforth, Oberwimmer & Robitzsch, 2016; Robitzsch, Pham &
Yanagida, 2016; <doi:10.17888/fdb-demo:bistE813I-16a>).
This package is developed by BIFIE (Federal Institute for
Educational Research, Innovation and Development of the Austrian
School System; Salzburg, Austria).
Author: BIFIE [aut], Alexander Robitzsch [ctb, cre],
Konrad Oberwimmer [ctb]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between BIFIEsurvey versions 2.191-12 dated 2018-10-17 and 3.0-14 dated 2018-12-11
DESCRIPTION | 17 +++++++++------ MD5 | 21 ++++++++++--------- R/BIFIE.crosstab.R | 17 ++++++--------- R/BIFIE.summary.R | 15 ++++++-------- R/BIFIE.twolevelreg.R | 4 +-- R/RcppExports.R | 2 - README.md | 2 - build |only inst/NEWS | 9 ++++++++ man/BIFIE.crosstab.Rd | 4 --- man/BIFIEsurvey-package.Rd | 48 +++++++++++++++------------------------------ src/RcppExports.cpp | 2 - 12 files changed, 66 insertions(+), 75 deletions(-)
Title: Estimation of Extreme Conditional Quantiles and Probabilities
Description: Extreme value theory, nonparametric kernel estimation, tail
conditional probabilities, extreme conditional quantile, adaptive estimation,
quantile regression, survival probabilities.
Author: Gilles Durrieu, Ion Grama, Kevin Jaunatre, Quang-Khoai Pham, Jean-Marie
Tricot
Maintainer: Kevin Jaunatre <kevin.jaunatre@univ-ubs.fr>
Diff between extremefit versions 0.2.4 dated 2018-11-28 and 0.2.5 dated 2018-12-11
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/PackageOxygen.R | 2 +- man/predict.hill.ts.Rd | 2 +- 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Artificial Neural Networks for Anomaly Detection
Description: Training of neural networks for classification and regression tasks
using mini-batch gradient descent. Special features include a function for
training autoencoders, which can be used to detect anomalies, and some
related plotting functions. Multiple activation functions are supported,
including tanh, relu, step and ramp. For the use of the step and ramp
activation functions in detecting anomalies using autoencoders, see
Hawkins et al. (2002) <doi:10.1007/3-540-46145-0_17>. Furthermore,
several loss functions are supported, including robust ones such as Huber
and pseudo-Huber loss, as well as L1 and L2 regularization. The possible
options for optimization algorithms are RMSprop, Adam and SGD with momentum.
The package contains a vectorized C++ implementation that facilitates
fast training through mini-batch learning.
Author: Bart Lammers
Maintainer: Bart Lammers <bart.f.lammers@gmail.com>
Diff between ANN2 versions 1.5 dated 2017-11-28 and 2.0 dated 2018-12-11
ANN2-1.5/ANN2/R/callable.R |only ANN2-1.5/ANN2/R/required-functions.R |only ANN2-1.5/ANN2/man/example_NN.Rd |only ANN2-1.5/ANN2/man/plot.rANN.Rd |only ANN2-1.5/ANN2/man/plotStepFunction.Rd |only ANN2-1.5/ANN2/man/replicator.Rd |only ANN2-1.5/ANN2/src/rcpp-nn.cpp |only ANN2-2.0/ANN2/DESCRIPTION | 37 ++-- ANN2-2.0/ANN2/MD5 | 69 +++++-- ANN2-2.0/ANN2/NAMESPACE | 41 ++-- ANN2-2.0/ANN2/R/RcppExports.R | 33 --- ANN2-2.0/ANN2/R/checks.R |only ANN2-2.0/ANN2/R/interface.R |only ANN2-2.0/ANN2/R/load_module.R |only ANN2-2.0/ANN2/R/namespace.R | 9 - ANN2-2.0/ANN2/R/plotting.R |only ANN2-2.0/ANN2/README.md |only ANN2-2.0/ANN2/man/ANN.Rd |only ANN2-2.0/ANN2/man/autoencoder.Rd | 251 +++++++++++++++-------------- ANN2-2.0/ANN2/man/compression_plot.Rd |only ANN2-2.0/ANN2/man/decode.Rd | 43 +++- ANN2-2.0/ANN2/man/encode.Rd | 48 +++-- ANN2-2.0/ANN2/man/neuralnetwork.Rd | 268 ++++++++++++++++--------------- ANN2-2.0/ANN2/man/plot.ANN.Rd | 47 ++--- ANN2-2.0/ANN2/man/predict.ANN.Rd | 48 ++--- ANN2-2.0/ANN2/man/print.ANN.Rd | 32 +-- ANN2-2.0/ANN2/man/read_ANN.Rd |only ANN2-2.0/ANN2/man/reconstruct.Rd | 48 ++--- ANN2-2.0/ANN2/man/reconstruction_plot.Rd |only ANN2-2.0/ANN2/man/setActivParams.Rd |only ANN2-2.0/ANN2/man/setData.Rd |only ANN2-2.0/ANN2/man/setLossParams.Rd |only ANN2-2.0/ANN2/man/setMeta.Rd |only ANN2-2.0/ANN2/man/setNetworkParams.Rd |only ANN2-2.0/ANN2/man/setOptimParams.Rd |only ANN2-2.0/ANN2/man/setTrainParams.Rd |only ANN2-2.0/ANN2/man/train.Rd |only ANN2-2.0/ANN2/man/write_ANN.Rd |only ANN2-2.0/ANN2/src/ANN.cpp |only ANN2-2.0/ANN2/src/ANN.h |only ANN2-2.0/ANN2/src/Activations.cpp |only ANN2-2.0/ANN2/src/Activations.h |only ANN2-2.0/ANN2/src/Layer.cpp |only ANN2-2.0/ANN2/src/Layer.h |only ANN2-2.0/ANN2/src/Loss.cpp |only ANN2-2.0/ANN2/src/Loss.h |only ANN2-2.0/ANN2/src/Makevars | 7 ANN2-2.0/ANN2/src/Makevars.win | 8 ANN2-2.0/ANN2/src/Optimizer.cpp |only ANN2-2.0/ANN2/src/Optimizer.h |only ANN2-2.0/ANN2/src/RcppExports.cpp | 112 ------------ ANN2-2.0/ANN2/src/arma_serialization.cpp |only ANN2-2.0/ANN2/src/arma_serialization.h |only ANN2-2.0/ANN2/src/utils.cpp |only ANN2-2.0/ANN2/src/utils.h |only 55 files changed, 533 insertions(+), 568 deletions(-)
Title: Read Rectangular Text Data
Description: The goal of 'readr' is to provide a fast and friendly way to read
rectangular data (like 'csv', 'tsv', and 'fwf'). It is designed to flexibly
parse many types of data found in the wild, while still cleanly failing when
data unexpectedly changes.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Romain Francois [aut],
R Core Team [ctb] (Date time code adapted from R),
RStudio [cph, fnd],
Jukka Jylänki [ctb, cph] (grisu3 implementation),
Mikkel Jørgensen [ctb, cph] (grisu3 implementation)
Maintainer: Jim Hester <james.hester@rstudio.com>
Diff between readr versions 1.2.0 dated 2018-11-22 and 1.3.0 dated 2018-12-11
readr-1.2.0/readr/inst/rcon |only readr-1.2.0/readr/man/figures/logo.svg |only readr-1.3.0/readr/DESCRIPTION | 10 - readr-1.3.0/readr/MD5 | 120 ++++++++++----------- readr-1.3.0/readr/NAMESPACE | 2 readr-1.3.0/readr/NEWS.md | 42 +++++++ readr-1.3.0/readr/R/RcppExports.R | 8 - readr-1.3.0/readr/R/callback.R | 4 readr-1.3.0/readr/R/col_types.R | 21 ++- readr-1.3.0/readr/R/collectors.R | 2 readr-1.3.0/readr/R/count_fields.R | 2 readr-1.3.0/readr/R/date-symbols.R | 2 readr-1.3.0/readr/R/file.R | 4 readr-1.3.0/readr/R/lines.R | 11 + readr-1.3.0/readr/R/locale.R | 4 readr-1.3.0/readr/R/melt_delim.R | 20 ++- readr-1.3.0/readr/R/melt_fwf.R | 2 readr-1.3.0/readr/R/melt_table.R | 10 - readr-1.3.0/readr/R/read_delim.R | 34 ++--- readr-1.3.0/readr/R/read_fwf.R | 8 - readr-1.3.0/readr/R/read_lines_chunked.R | 4 readr-1.3.0/readr/R/read_table.R | 12 +- readr-1.3.0/readr/R/source.R | 34 ++--- readr-1.3.0/readr/R/tokenizer.R | 2 readr-1.3.0/readr/R/type_convert.R | 2 readr-1.3.0/readr/R/utils.R | 25 ++++ readr-1.3.0/readr/R/write.R | 20 ++- readr-1.3.0/readr/R/zzz.R | 29 +++++ readr-1.3.0/readr/README.md | 4 readr-1.3.0/readr/inst/doc/readr.html | 14 +- readr-1.3.0/readr/man/col_skip.Rd | 2 readr-1.3.0/readr/man/cols.Rd | 2 readr-1.3.0/readr/man/datasource.Rd | 2 readr-1.3.0/readr/man/figures/logo.png |binary readr-1.3.0/readr/man/locale.Rd | 2 readr-1.3.0/readr/man/melt_delim.Rd | 2 readr-1.3.0/readr/man/read_delim.Rd | 4 readr-1.3.0/readr/man/read_delim_chunked.Rd | 2 readr-1.3.0/readr/man/read_fwf.Rd | 5 readr-1.3.0/readr/man/read_lines.Rd | 9 + readr-1.3.0/readr/man/read_log.Rd | 2 readr-1.3.0/readr/man/read_table.Rd | 2 readr-1.3.0/readr/man/spec_delim.Rd | 2 readr-1.3.0/readr/man/type_convert.Rd | 2 readr-1.3.0/readr/src/Makevars | 27 +++- readr-1.3.0/readr/src/RcppExports.cpp | 18 +-- readr-1.3.0/readr/src/Reader.cpp | 3 readr-1.3.0/readr/src/Source.cpp | 11 + readr-1.3.0/readr/src/Source.h | 45 ++++--- readr-1.3.0/readr/src/SourceFile.h | 7 - readr-1.3.0/readr/src/SourceRaw.h | 8 + readr-1.3.0/readr/src/SourceString.h | 7 - readr-1.3.0/readr/src/Tokenizer.cpp | 3 readr-1.3.0/readr/src/TokenizerDelim.cpp | 5 readr-1.3.0/readr/src/TokenizerLine.h | 14 +- readr-1.3.0/readr/src/parse.cpp | 10 - readr-1.3.0/readr/src/rcon/connection.c | 7 - readr-1.3.0/readr/src/read.cpp | 6 - readr-1.3.0/readr/tests/testthat/test-melt-csv.R | 7 - readr-1.3.0/readr/tests/testthat/test-read-csv.R | 42 +++++++ readr-1.3.0/readr/tests/testthat/test-read-lines.R | 21 +++ readr-1.3.0/readr/tests/testthat/test-write.R | 14 ++ 62 files changed, 491 insertions(+), 254 deletions(-)
Title: 'pbdR' Distributed Matrix Methods
Description: A set of classes for managing distributed matrices, and
a collection of methods for computing linear algebra and
statistics. Computation is handled mostly by routines from the
'pbdBASE' package, which itself relies on the 'ScaLAPACK' and
'PBLAS' numerical libraries for distributed computing.
Author: Drew Schmidt [aut, cre],
Wei-Chen Chen [aut],
Sebastien Lamy de la Chapelle [aut],
George Ostrouchov [aut],
Pragneshkumar Patel [aut],
ZhaoKang Wang [ctb],
Michael Lawrence [ctb],
R Core team [ctb] (some wrappers taken from the base and stats
packages)
Maintainer: Drew Schmidt <wrathematics@gmail.com>
Diff between pbdDMAT versions 0.4-2 dated 2016-10-21 and 0.5-0 dated 2018-12-11
pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/10_reductions.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/11_arithmetic.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/12_pblas.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/13_scalapack.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/14_stats.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/15_qr.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/16_lmfit.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/17_norm.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/1_extraction.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/2_NAs.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/3_rbind_cbind.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/4_construction.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/5_stress.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/6_redist.R |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/all |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/expm.r |only pbdDMAT-0.4-2/pbdDMAT/inst/tests_batch/run |only pbdDMAT-0.5-0/pbdDMAT/ChangeLog | 9 pbdDMAT-0.5-0/pbdDMAT/DESCRIPTION | 16 pbdDMAT-0.5-0/pbdDMAT/MD5 | 251 +++---- pbdDMAT-0.5-0/pbdDMAT/NAMESPACE | 6 pbdDMAT-0.5-0/pbdDMAT/R/00-classes.r | 4 pbdDMAT-0.5-0/pbdDMAT/R/accessors.r | 18 pbdDMAT-0.5-0/pbdDMAT/R/as.ddmatrix.r | 64 - pbdDMAT-0.5-0/pbdDMAT/R/as.matrix.r | 36 - pbdDMAT-0.5-0/pbdDMAT/R/as.vector.r | 17 pbdDMAT-0.5-0/pbdDMAT/R/constructors.r | 17 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_[.r | 38 - pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_apply.R | 16 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_arithmetic.R | 16 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_bind.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_chol.r | 21 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_chol2inv.r | 47 - pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_cond.r | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_cov.R | 16 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_diag.r | 20 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_eigen.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_eigen2.r | 30 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_expm.r | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_head.r | 17 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_isdot.r | 22 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_lm.R | 40 - pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_logic.r | 23 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_lu.r | 24 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_math.R | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_matmult.r | 21 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_na.r | 20 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_norm.r | 20 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_prcomp.R | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_print.r | 21 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_qr.r | 107 +-- pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_redistribute.r | 55 - pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_reductions.R | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_round.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_scale.r | 21 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_sd.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_solve.r | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_special.r | 15 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_summary.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_sumstats.r | 18 pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_svd.r | 35 - pbdDMAT-0.5-0/pbdDMAT/R/ddmatrix_transpose.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/getLocal.r | 19 pbdDMAT-0.5-0/pbdDMAT/R/pbdDMAT-package.R | 2 pbdDMAT-0.5-0/pbdDMAT/README.md | 5 pbdDMAT-0.5-0/pbdDMAT/inst/CITATION | 1 pbdDMAT-0.5-0/pbdDMAT/inst/RNACI/RNACI.h | 485 ++++++-------- pbdDMAT-0.5-0/pbdDMAT/inst/batchtests |only pbdDMAT-0.5-0/pbdDMAT/inst/doc/pbdDMAT-guide.Rnw | 5 pbdDMAT-0.5-0/pbdDMAT/inst/doc/pbdDMAT-guide.pdf |binary pbdDMAT-0.5-0/pbdDMAT/inst/tests_batch/19_communicators.R |only pbdDMAT-0.5-0/pbdDMAT/man/Comparators.Rd | 57 - pbdDMAT-0.5-0/pbdDMAT/man/Hilbert.Rd | 17 pbdDMAT-0.5-0/pbdDMAT/man/accessors.Rd | 43 - pbdDMAT-0.5-0/pbdDMAT/man/arithmetic.Rd | 44 - pbdDMAT-0.5-0/pbdDMAT/man/as.ddmatrix.Rd | 49 - pbdDMAT-0.5-0/pbdDMAT/man/as.matrix.Rd | 26 pbdDMAT-0.5-0/pbdDMAT/man/as.rowcyclic.Rd | 41 - pbdDMAT-0.5-0/pbdDMAT/man/as.vector.Rd | 19 pbdDMAT-0.5-0/pbdDMAT/man/binds.Rd | 26 pbdDMAT-0.5-0/pbdDMAT/man/chol2inv.Rd | 33 pbdDMAT-0.5-0/pbdDMAT/man/companion.Rd | 1 pbdDMAT-0.5-0/pbdDMAT/man/condnums.Rd | 28 pbdDMAT-0.5-0/pbdDMAT/man/control.Rd | 1 pbdDMAT-0.5-0/pbdDMAT/man/covariance.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-apply.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-chol.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-class.Rd | 2 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-constructors.Rd | 65 - pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-eigen.Rd | 18 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-lu.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-norm.Rd | 19 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-prcomp.Rd | 24 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-print.Rd | 22 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-scale.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-solve.Rd | 18 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-summary.Rd | 19 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-sumstats.Rd | 27 pbdDMAT-0.5-0/pbdDMAT/man/ddmatrix-svd.Rd | 37 - pbdDMAT-0.5-0/pbdDMAT/man/diag-constructors.Rd | 32 pbdDMAT-0.5-0/pbdDMAT/man/eigen2.Rd | 25 pbdDMAT-0.5-0/pbdDMAT/man/expm.Rd | 16 pbdDMAT-0.5-0/pbdDMAT/man/extract.Rd | 21 pbdDMAT-0.5-0/pbdDMAT/man/getLocal.Rd | 21 pbdDMAT-0.5-0/pbdDMAT/man/headsortails.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/insert.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/isSymmetric.Rd | 4 pbdDMAT-0.5-0/pbdDMAT/man/isdot.Rd | 28 pbdDMAT-0.5-0/pbdDMAT/man/lm.fit.Rd | 40 - pbdDMAT-0.5-0/pbdDMAT/man/math.Rd | 38 - pbdDMAT-0.5-0/pbdDMAT/man/matmult.Rd | 22 pbdDMAT-0.5-0/pbdDMAT/man/na.Rd | 21 pbdDMAT-0.5-0/pbdDMAT/man/pbdDMAT-package.Rd | 9 pbdDMAT-0.5-0/pbdDMAT/man/qr.Rd | 35 - pbdDMAT-0.5-0/pbdDMAT/man/redistribute.Rd | 28 pbdDMAT-0.5-0/pbdDMAT/man/reductions.Rd | 40 - pbdDMAT-0.5-0/pbdDMAT/man/rounding.Rd | 24 pbdDMAT-0.5-0/pbdDMAT/man/sd.Rd | 20 pbdDMAT-0.5-0/pbdDMAT/man/sparsity.Rd | 7 pbdDMAT-0.5-0/pbdDMAT/man/sweep.Rd | 3 pbdDMAT-0.5-0/pbdDMAT/man/transpose.Rd | 22 pbdDMAT-0.5-0/pbdDMAT/src/Makevars | 5 pbdDMAT-0.5-0/pbdDMAT/src/converters.c | 8 pbdDMAT-0.5-0/pbdDMAT/src/dmat.h | 12 pbdDMAT-0.5-0/pbdDMAT/src/pbdDMAT_native.c |only pbdDMAT-0.5-0/pbdDMAT/src/sparse_utils.c | 14 pbdDMAT-0.5-0/pbdDMAT/src/util.c | 2 pbdDMAT-0.5-0/pbdDMAT/vignettes/pbdDMAT-guide.Rnw | 5 128 files changed, 834 insertions(+), 2284 deletions(-)
Title: Local Projections Impulse Response Functions
Description: Provides functions to estimate and plot linear as well as nonlinear impulse
responses based on local projections by Jordà (2005) <doi:10.1257/0002828053828518>.
Author: Philipp Adämmer [aut, cre] (<https://orcid.org/0000-0003-3770-0097>),
James P. LeSage [ctb],
Mehmet Balcilar [ctb]
Maintainer: Philipp Adämmer <adaemmer@hsu-hh.de>
Diff between lpirfs versions 0.1.3 dated 2018-09-29 and 0.1.4 dated 2018-12-11
DESCRIPTION | 13 - MD5 | 78 +++--- NAMESPACE | 10 NEWS.md | 23 + R/RcppExports.R | 34 +- R/create_lin_data.R | 28 +- R/create_nl_data.R | 114 +++++--- R/create_panel_data.R |only R/get_vals_switching.R | 107 +++++++- R/lp_lin.R | 38 -- R/lp_lin_iv.R | 62 +--- R/lp_lin_panel.R |only R/lp_nl.R | 85 +++--- R/lp_nl_iv.R | 44 +-- R/lp_nl_panel.R |only R/package.R | 4 R/plot_lin.R | 4 R/plot_nl.R | 2 R/se_hc_panel_cluster.R |only R/zzz.R | 2 README.md | 25 - man/create_lin_data.Rd | 4 man/create_panel_data.Rd |only man/get_vals_switching.Rd | 6 man/lp_lin.Rd | 22 - man/lp_lin_iv.Rd | 34 -- man/lp_lin_panel.Rd |only man/lp_nl.Rd | 43 +-- man/lp_nl_iv.Rd | 26 -- man/lp_nl_panel.Rd |only man/lpirfs-package.Rd | 4 man/se_hc_panel_cluster.Rd |only src/Makevars | 9 src/Makevars.win | 6 src/RcppExports.cpp | 20 - tests/testthat/test-get_var_lagcrit.R | 4 tests/testthat/test-hp_filter.R | 4 tests/testthat/test-lp_lin.R | 246 +++++++++++-------- tests/testthat/test-lp_lin_iv.R | 160 ++++++------ tests/testthat/test-lp_lin_panel.R |only tests/testthat/test-lp_nl.R | 440 ++++++++++++++++++++++++---------- tests/testthat/test-lp_nl_iv.R | 89 ++++-- tests/testthat/test-lp_nl_panel.R |only tests/testthat/test-plot_lin.R | 6 tests/testthat/test-plot_nl.R | 6 45 files changed, 1078 insertions(+), 724 deletions(-)
Title: Turn Geospatial Polygons into Regular or Hexagonal Grids
Description: Turn irregular polygons (such as geographical regions) into regular or hexagonal grids.
This package enables the generation of regular (square) and hexagonal grids through the package
'sp' and then assigns the content of the existing polygons to the new grid using
the Hungarian algorithm, Kuhn (1955) (<doi:10.1007/978-3-540-68279-0_2>).
This prevents the need for manual generation of hexagonal grids or regular grids
that are supposed to reflect existing geography.
Author: Joseph Bailey [aut, cre],
Ryan Hafen [ctb],
Jakub Nowosad [ctb] (<https://orcid.org/0000-0002-1057-3721>),
Lars Simon Zehnder [ctb] (RcppArmadillo implmentation of Munkres'
Assignment Algorithm)
Maintainer: Joseph Bailey <jbailey@futurecities.catapult.org.uk>
Diff between geogrid versions 0.1.0.1 dated 2018-08-19 and 0.1.1 dated 2018-12-11
geogrid-0.1.0.1/geogrid/R/hexmapr-package.R |only geogrid-0.1.0.1/geogrid/man/hexmapr.Rd |only geogrid-0.1.1/geogrid/DESCRIPTION | 29 geogrid-0.1.1/geogrid/MD5 | 46 - geogrid-0.1.1/geogrid/NAMESPACE | 9 geogrid-0.1.1/geogrid/NEWS.md | 8 geogrid-0.1.1/geogrid/R/assign_polygons.R | 35 geogrid-0.1.1/geogrid/R/calculate_grid.R | 91 +- geogrid-0.1.1/geogrid/R/geogrid-package.R |only geogrid-0.1.1/geogrid/R/read_polygons.R | 1 geogrid-0.1.1/geogrid/README.md | 401 +++++------ geogrid-0.1.1/geogrid/man/README_figs/README-example0-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example1-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example2-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example4-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example6-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example6a-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example7-1.png |binary geogrid-0.1.1/geogrid/man/README_figs/README-example8-1.png |binary geogrid-0.1.1/geogrid/man/assign_polygons.Rd | 26 geogrid-0.1.1/geogrid/man/calculate_cell_size.Rd | 7 geogrid-0.1.1/geogrid/man/calculate_grid.Rd | 38 - geogrid-0.1.1/geogrid/man/geogrid-package.Rd |only geogrid-0.1.1/geogrid/man/plot.geogrid.Rd | 8 geogrid-0.1.1/geogrid/src/minimal-assignment.cpp | 10 geogrid-0.1.1/geogrid/tests/testthat/test-zzz-lintr.R | 11 26 files changed, 403 insertions(+), 317 deletions(-)
Title: A Gallery of Animations in Statistics and Utilities to Create
Animations
Description: Provides functions for animations in statistics, covering topics
in probability theory, mathematical statistics, multivariate statistics,
non-parametric statistics, sampling survey, linear models, time series,
computational statistics, data mining and machine learning. These functions
may be helpful in teaching statistics and data analysis. Also provided in this
package are a series of functions to save animations to various formats, e.g.
Flash, 'GIF', HTML pages, 'PDF' and videos. 'PDF' animations can be inserted
into 'Sweave' / 'knitr' easily.
Author: Yihui Xie [aut, cre],
Christian Mueller [ctb],
Lijia Yu [ctb],
Weicheng Zhu [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between animation versions 2.5 dated 2017-03-30 and 2.6 dated 2018-12-11
DESCRIPTION | 19 ++--- MD5 | 176 +++++++++++++++++++++++------------------------ NEWS | 15 ++++ R/BM.circle.R | 1 R/MC.hitormiss.R | 1 R/MC.samplemean.R | 1 R/Rosling.bubbles.R | 6 + R/ani.options.R | 12 +++ R/ani.record.R | 3 R/animation-package.R | 4 - R/bisection.method.R | 5 + R/boot.iid.R | 4 - R/boot.lowess.R | 1 R/brownian.motion.R | 1 R/buffon.needle.R | 4 - R/clt.ani.R | 1 R/conf.int.R | 4 - R/cv.ani.R | 1 R/cv.nfeaturesLDA.R | 4 - R/flip.coin.R | 1 R/grad.desc.R | 1 R/im.convert.R | 133 +++++++++++++++++++++-------------- R/kmeans.ani.R | 3 R/knn.ani.R | 4 - R/least.squares.R | 1 R/lln.ani.R | 1 R/moving.block.R | 1 R/mwar.ani.R | 4 - R/newton.method.R | 4 - R/pdftk.R | 6 + R/price.ani.R | 1 R/qpdf.R | 4 - R/quincunx.R | 1 R/sample.cluster.R | 1 R/sample.ratio.R | 1 R/sample.simple.R | 1 R/sample.strat.R | 1 R/sample.system.R | 1 R/saveGIF.R | 32 +++++--- R/saveHTML.R | 8 +- R/saveLatex.R | 8 +- R/saveSWF.R | 1 R/saveVideo.R | 7 + R/sim.qqnorm.R | 1 R/vi.lilac.chaser.R | 1 R/zzz.R | 8 +- README.md | 1 man/BM.circle.Rd | 3 man/MC.hitormiss.Rd | 3 man/MC.samplemean.Rd | 3 man/Rosling.bubbles.Rd | 5 + man/ani.options.Rd | 14 +++ man/ani.record.Rd | 3 man/animation-package.Rd | 4 - man/bisection.method.Rd | 5 + man/boot.iid.Rd | 4 - man/boot.lowess.Rd | 3 man/brownian.motion.Rd | 3 man/buffon.needle.Rd | 4 - man/clt.ani.Rd | 3 man/conf.int.Rd | 4 - man/convert.Rd | 14 ++- man/cv.ani.Rd | 3 man/cv.nfeaturesLDA.Rd | 4 - man/flip.coin.Rd | 3 man/grad.desc.Rd | 3 man/kmeans.ani.Rd | 3 man/knn.ani.Rd | 4 - man/least.squares.Rd | 3 man/lln.ani.Rd | 3 man/moving.block.Rd | 3 man/mwar.ani.Rd | 4 - man/newton.method.Rd | 4 - man/pdftk.Rd | 4 - man/price.ani.Rd | 3 man/qpdf.Rd | 4 - man/quincunx.Rd | 3 man/sample.cluster.Rd | 3 man/sample.ratio.Rd | 3 man/sample.simple.Rd | 3 man/sample.strat.Rd | 3 man/sample.system.Rd | 3 man/saveGIF.Rd | 16 ++-- man/saveHTML.Rd | 5 + man/saveLatex.Rd | 5 + man/saveSWF.Rd | 4 + man/saveVideo.Rd | 5 + man/sim.qqnorm.Rd | 3 man/vi.lilac.chaser.Rd | 3 89 files changed, 468 insertions(+), 214 deletions(-)
Title: Smooth and Tidy Spatial Features
Description: Tools for smoothing and tidying spatial features (i.e. lines and
polygons) to make them more aesthetically pleasing. Smooth curves, fill
holes, and remove small fragments from lines and polygons.
Author: Matthew Strimas-Mackey [aut, cre]
(<https://orcid.org/0000-0001-8929-7776>)
Maintainer: Matthew Strimas-Mackey <mstrimas@gmail.com>
Diff between smoothr versions 0.1.0 dated 2018-04-04 and 0.1.1 dated 2018-12-11
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/drop-crumbs.r | 2 +- R/fill-holes.r | 2 +- build/vignette.rds |binary inst/doc/smoothr.html | 24 +++++++++++++++++++++++- tests/testthat/test_smooth.r | 4 ++-- 8 files changed, 43 insertions(+), 16 deletions(-)
Title: Statistical Package for Analysis Related Cleaning Support
Description: To clean and analyze hospital data, and generate sets for statistical modeling.
Author: Wangjian Zhang, Zhicheng Du, Ziqiang Lin, Jijin Yao, Yanan Jin, Wayne R. Lawrence, Yuantao Hao
Maintainer: Wangjian Zhang <wzhang27@albany.edu>
Diff between rSPARCS versions 0.0.1 dated 2018-12-09 and 0.0.2 dated 2018-12-11
DESCRIPTION | 13 ++++++------- MD5 | 18 +++++++++--------- R/FIPS.name.R | 9 +++++---- man/CXover.data.Rd | 4 ++-- man/DBFgeocode.Rd | 2 +- man/FIPS.name.Rd | 11 +++++++---- man/case.series.Rd | 2 +- man/desc.comp.Rd | 2 +- man/dupl.readm.Rd | 6 +++--- man/pick.cases.Rd | 2 +- 10 files changed, 36 insertions(+), 33 deletions(-)
Title: Tools for Working with URLs and HTTP
Description: Useful tools for working with HTTP organised by
HTTP verbs (GET(), POST(), etc). Configuration functions make it easy
to control additional request components (authenticate(),
add_headers() and so on).
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between httr versions 1.3.1 dated 2017-08-20 and 1.4.0 dated 2018-12-11
httr-1.3.1/httr/demo/oauth1-vimeo.r |only httr-1.3.1/httr/tests/testthat/test-encoding.R |only httr-1.4.0/httr/DESCRIPTION | 37 httr-1.4.0/httr/MD5 | 292 ++--- httr-1.4.0/httr/NAMESPACE | 1 httr-1.4.0/httr/NEWS.md | 62 + httr-1.4.0/httr/R/authenticate.r | 16 httr-1.4.0/httr/R/body.R | 27 httr-1.4.0/httr/R/cache.R | 17 httr-1.4.0/httr/R/callback.R | 36 httr-1.4.0/httr/R/config.r | 42 httr-1.4.0/httr/R/content-parse.r | 29 httr-1.4.0/httr/R/content.r | 44 httr-1.4.0/httr/R/cookies.r | 6 httr-1.4.0/httr/R/date.R | 23 httr-1.4.0/httr/R/envvar.R | 9 httr-1.4.0/httr/R/handle-url.r | 4 httr-1.4.0/httr/R/handle.r | 16 httr-1.4.0/httr/R/headers.r | 38 httr-1.4.0/httr/R/http-browse.r | 2 httr-1.4.0/httr/R/http-delete.r | 8 httr-1.4.0/httr/R/http-get.r | 24 httr-1.4.0/httr/R/http-head.r | 4 httr-1.4.0/httr/R/http-patch.r | 2 httr-1.4.0/httr/R/http-post.r | 39 httr-1.4.0/httr/R/http-put.r | 2 httr-1.4.0/httr/R/http-verb.R | 10 httr-1.4.0/httr/R/httr.r | 31 httr-1.4.0/httr/R/media-guess.r | 2 httr-1.4.0/httr/R/media-parse.r | 24 httr-1.4.0/httr/R/oauth-app.r | 44 httr-1.4.0/httr/R/oauth-cache.R | 6 httr-1.4.0/httr/R/oauth-endpoint.r | 28 httr-1.4.0/httr/R/oauth-error.r | 21 httr-1.4.0/httr/R/oauth-exchanger.r | 2 httr-1.4.0/httr/R/oauth-init.R | 105 +- httr-1.4.0/httr/R/oauth-listener.r | 24 httr-1.4.0/httr/R/oauth-refresh.R | 27 httr-1.4.0/httr/R/oauth-server-side.R | 7 httr-1.4.0/httr/R/oauth-signature.r | 21 httr-1.4.0/httr/R/oauth-token-utils.R | 14 httr-1.4.0/httr/R/oauth-token.r | 104 +- httr-1.4.0/httr/R/progress.R | 13 httr-1.4.0/httr/R/proxy.r | 1 httr-1.4.0/httr/R/request.R | 57 - httr-1.4.0/httr/R/response-status.r | 73 - httr-1.4.0/httr/R/response-type.R | 3 httr-1.4.0/httr/R/response.r | 25 httr-1.4.0/httr/R/retry.R | 50 httr-1.4.0/httr/R/sha1.r | 9 httr-1.4.0/httr/R/str.R | 13 httr-1.4.0/httr/R/upload-file.r | 7 httr-1.4.0/httr/R/url-query.r | 9 httr-1.4.0/httr/R/url.r | 56 - httr-1.4.0/httr/R/user-agent.r | 2 httr-1.4.0/httr/R/utils.r | 15 httr-1.4.0/httr/R/verbose.r | 26 httr-1.4.0/httr/R/write-function.R | 27 httr-1.4.0/httr/R/zzz.R | 2 httr-1.4.0/httr/README.md | 8 httr-1.4.0/httr/build/vignette.rds |binary httr-1.4.0/httr/demo/00Index | 4 httr-1.4.0/httr/demo/connection-sharing.r | 21 httr-1.4.0/httr/demo/oauth1-nounproject.r |only httr-1.4.0/httr/demo/oauth1-twitter.r | 6 httr-1.4.0/httr/demo/oauth1-withings.r | 3 httr-1.4.0/httr/demo/oauth2-azure.r | 35 httr-1.4.0/httr/demo/oauth2-facebook.r | 66 - httr-1.4.0/httr/demo/oauth2-github.r | 5 httr-1.4.0/httr/demo/oauth2-google.r | 12 httr-1.4.0/httr/demo/oauth2-linkedin.r | 29 httr-1.4.0/httr/demo/oauth2-reddit.R | 4 httr-1.4.0/httr/demo/oauth2-vimeo.r |only httr-1.4.0/httr/demo/oauth2-yahoo.r |only httr-1.4.0/httr/demo/oauth2-yelp.R | 2 httr-1.4.0/httr/inst/doc/api-packages.Rmd | 4 httr-1.4.0/httr/inst/doc/api-packages.html | 809 ++++++++++------ httr-1.4.0/httr/inst/doc/quickstart.html | 746 +++++++++----- httr-1.4.0/httr/inst/doc/secrets.R | 7 httr-1.4.0/httr/inst/doc/secrets.Rmd | 2 httr-1.4.0/httr/inst/doc/secrets.html | 398 +++++-- httr-1.4.0/httr/man/BROWSE.Rd | 12 httr-1.4.0/httr/man/DELETE.Rd | 60 - httr-1.4.0/httr/man/GET.Rd | 18 httr-1.4.0/httr/man/HEAD.Rd | 18 httr-1.4.0/httr/man/PATCH.Rd | 60 - httr-1.4.0/httr/man/POST.Rd | 60 - httr-1.4.0/httr/man/PUT.Rd | 57 - httr-1.4.0/httr/man/RETRY.Rd | 72 - httr-1.4.0/httr/man/Token-class.Rd | 15 httr-1.4.0/httr/man/VERB.Rd | 66 - httr-1.4.0/httr/man/add_headers.Rd | 11 httr-1.4.0/httr/man/authenticate.Rd | 7 httr-1.4.0/httr/man/config.Rd | 16 httr-1.4.0/httr/man/content.Rd | 18 httr-1.4.0/httr/man/content_type.Rd | 4 httr-1.4.0/httr/man/cookies.Rd | 2 httr-1.4.0/httr/man/get_callback.Rd | 25 httr-1.4.0/httr/man/handle.Rd | 5 httr-1.4.0/httr/man/headers.Rd | 4 httr-1.4.0/httr/man/http_condition.Rd | 8 httr-1.4.0/httr/man/http_error.Rd | 5 httr-1.4.0/httr/man/http_status.Rd | 11 httr-1.4.0/httr/man/http_type.Rd | 2 httr-1.4.0/httr/man/httr-package.Rd | 31 httr-1.4.0/httr/man/httr_options.Rd | 2 httr-1.4.0/httr/man/init_oauth1.0.Rd | 6 httr-1.4.0/httr/man/init_oauth2.0.Rd | 37 httr-1.4.0/httr/man/jwt_signature.Rd | 4 httr-1.4.0/httr/man/oauth1.0_token.Rd | 11 httr-1.4.0/httr/man/oauth2.0_token.Rd | 27 httr-1.4.0/httr/man/oauth_app.Rd | 42 httr-1.4.0/httr/man/oauth_callback.Rd | 2 httr-1.4.0/httr/man/oauth_endpoint.Rd | 12 httr-1.4.0/httr/man/oauth_exchanger.Rd | 2 httr-1.4.0/httr/man/oauth_listener.Rd | 8 httr-1.4.0/httr/man/oauth_service_token.Rd | 3 httr-1.4.0/httr/man/oauth_signature.Rd | 2 httr-1.4.0/httr/man/parse_http_date.Rd | 12 httr-1.4.0/httr/man/parse_media.Rd | 19 httr-1.4.0/httr/man/parse_url.Rd | 21 httr-1.4.0/httr/man/progress.Rd | 1 httr-1.4.0/httr/man/response.Rd | 25 httr-1.4.0/httr/man/revoke_all.Rd | 2 httr-1.4.0/httr/man/set_config.Rd | 5 httr-1.4.0/httr/man/set_cookies.Rd | 3 httr-1.4.0/httr/man/sign_oauth.Rd | 4 httr-1.4.0/httr/man/stop_for_status.Rd | 22 httr-1.4.0/httr/man/timeout.Rd | 1 httr-1.4.0/httr/man/upload_file.Rd | 6 httr-1.4.0/httr/man/use_proxy.Rd | 1 httr-1.4.0/httr/man/user_agent.Rd | 1 httr-1.4.0/httr/man/verbose.Rd | 25 httr-1.4.0/httr/man/with_config.Rd | 7 httr-1.4.0/httr/man/write_disk.Rd | 6 httr-1.4.0/httr/man/write_stream.Rd | 9 httr-1.4.0/httr/tests/testthat/test-body.r | 15 httr-1.4.0/httr/tests/testthat/test-callback.R | 1 httr-1.4.0/httr/tests/testthat/test-config.r | 19 httr-1.4.0/httr/tests/testthat/test-content-parse.r |only httr-1.4.0/httr/tests/testthat/test-header.r | 21 httr-1.4.0/httr/tests/testthat/test-http-head.r |only httr-1.4.0/httr/tests/testthat/test-oauth-cache.R | 4 httr-1.4.0/httr/tests/testthat/test-oauth-server-side.R | 2 httr-1.4.0/httr/tests/testthat/test-oauth.R | 50 httr-1.4.0/httr/tests/testthat/test-request.r | 26 httr-1.4.0/httr/tests/testthat/test-response.r | 11 httr-1.4.0/httr/tests/testthat/test-retry.R |only httr-1.4.0/httr/tests/testthat/test-url.r | 12 httr-1.4.0/httr/vignettes/api-packages.Rmd | 4 httr-1.4.0/httr/vignettes/secrets.Rmd | 2 151 files changed, 2963 insertions(+), 1918 deletions(-)
Title: Adaptive Multivariate Integration over Hypercubes
Description: R wrappers around the cubature C library of Steven
G. Johnson for adaptive multivariate integration over hypercubes
and the Cuba C library of Thomas Hahn for deterministic and
Monte Carlo integration. Scalar and vector interfaces for
cubature and Cuba routines are provided; the vector interfaces
are highly recommended as demonstrated in the package
vignette.
Author: Balasubramanian Narasimhan [aut, cre],
Manuel Koller [ctb],
Steven G. Johnson [aut],
Thomas Hahn [aut],
Annie Bouvier [aut],
Kiên Kiêu [aut],
Simen Gaure [ctb]
Maintainer: Balasubramanian Narasimhan <naras@stat.stanford.edu>
Diff between cubature versions 2.0.1 dated 2018-11-29 and 2.0.2 dated 2018-12-11
DESCRIPTION | 7 MD5 | 49 +- NEWS.md | 26 + inst/doc/cubature.html | 524 +++++++++++++++---------------- inst/doc/version2.html | 6 src/Cuba-4.2-nonwin/makefile.in | 2 src/Cuba-4.2-nonwin/src/common/Fork.c |only src/Cuba-4.2-nonwin/src/common/stddecl.h | 16 src/Cuba-4.2-win/src/common/Fork.c | 10 src/Cuba-4.2-win/src/common/stddecl.h | 5 src/Cuba-4.2/config.log | 86 ++--- src/Cuba-4.2/config.status | 8 src/Cuba-4.2/makefile | 2 src/Cuba-4.2/makefile.in | 2 src/Cuba-4.2/src/common/Fork.c | 14 src/Cuba-4.2/src/common/Parallel.c | 12 src/Cuba-4.2/src/common/stddecl.h | 16 src/Cuba-4.2/src/cuhre/Integrate.c | 6 src/Cuba-4.2/src/divonne/Integrate.c | 6 src/Cuba-4.2/src/divonne/Rule.c | 6 src/Cuba-4.2/src/suave/Integrate.c | 18 - src/Cuba-4.2/src/vegas/Integrate.c | 5 src/Makevars | 25 - src/Makevars.win | 6 src/Rcpp-cubature.cpp | 1 tests/testthat/test_cuba.R | 1 26 files changed, 469 insertions(+), 390 deletions(-)
Title: Miscellaneous Functions from M. Kohl
Description: Contains several functions for statistical data analysis; e.g. for sample size and power calculations, computation of confidence intervals, and generation of similarity matrices.
Author: Matthias Kohl [aut, cre] (<https://orcid.org/0000-0001-9514-8910>)
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKmisc versions 1.1 dated 2018-08-05 and 1.2 dated 2018-12-11
DESCRIPTION | 10 MD5 | 22 NAMESPACE | 1 NEWS | 8 R/AUC.R | 4 R/powerWelchttest.R |only inst/doc/MKmisc.R | 9 inst/doc/MKmisc.Rmd | 17 inst/doc/MKmisc.html | 2402 +++++++++++++++++++--------------------------- man/0MKmisc-package.Rd | 6 man/power.nb.test.Rd | 2 man/power.welch.t.test.Rd |only vignettes/MKmisc.Rmd | 17 13 files changed, 1105 insertions(+), 1393 deletions(-)
Title: Wrap R Tools for Debugging and Parametric Programming
Description: Tools for writing and debugging R code. Provides:
'let()'
(converts non-standard evaluation interfaces to parametric standard
evaluation interfaces, inspired by 'gtools:strmacro()' and 'base::bquote()'),
'%.>%' dot-pipe (an 'S3' configurable pipe),
'build_frame()'/'draw_frame()' ('data.frame' example tools),
'qc()' (quoting concatenate),
':=' (named map builder),
and more.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between wrapr versions 1.7.0 dated 2018-11-15 and 1.8.0 dated 2018-12-11
DESCRIPTION | 10 MD5 | 103 +++++-- NAMESPACE | 42 ++ NEWS.md | 10 R/CapturePipeline.R |only R/UnaryFunctions.R |only R/as_dot_fn.R |only R/bpipe.R | 39 ++ R/c.R | 8 R/clean_fit.R |only R/dot.R |only R/plus.R |only R/qae.R | 7 R/split_at_brace_pairs.R |only README.md | 9 build/vignette.rds |binary inst/doc/CornerCases.html | 428 +++++++++++++++++++++++------- inst/doc/DebugFnW.html | 414 ++++++++++++++++++++++------- inst/doc/FrameTools.html | 398 ++++++++++++++++++++++------ inst/doc/Function_Objects.R |only inst/doc/Function_Objects.Rmd |only inst/doc/Function_Objects.html |only inst/doc/Named_Arguments.html | 358 ++++++++++++++++++++----- inst/doc/QuotingConcatinate.html | 346 ++++++++++++++++++++---- inst/doc/SubstitutionModes.html | 392 ++++++++++++++++++++++----- inst/doc/dot_pipe.html | 330 +++++++++++++++++++---- inst/doc/lambda.html | 341 ++++++++++++++++++++---- inst/doc/let.html | 364 +++++++++++++++++++++---- inst/doc/named_map_builder.html | 336 ++++++++++++++++++++--- inst/doc/wrapr_applicable.html | 496 +++++++++++++++++++++++++---------- inst/doc/wrapr_pipe.pdf |binary man/ApplyTo.Rd |only man/Collector.Rd |only man/PartialFunction-class.Rd |only man/PartialNamedFn-class.Rd |only man/SrcFunction-class.Rd |only man/UnaryFn-class.Rd |only man/UnaryFnList-class.Rd |only man/apply_left.Collector.Rd |only man/apply_left.UnaryFn.Rd |only man/apply_right.UnaryFn.Rd |only man/apply_right.default.Rd | 2 man/apply_right_S4.Rd | 2 man/as.UnaryFn.Rd |only man/as.list.UnaryFn.Rd |only man/as.list.UnaryFnList.Rd |only man/as_dot_fn.Rd |only man/as_fn.Rd |only man/as_fnlist.Rd |only man/c.UnaryFn.Rd |only man/clean_fit_glm.Rd |only man/clean_fit_lm.Rd |only man/concat_items_rev.Rd |only man/dot_arrow.Rd | 5 man/eval_dot_sequence.Rd |only man/fnlist.Rd |only man/format.PartialFunction.Rd |only man/format.PartialNamedFn.Rd |only man/format.SrcFunction.Rd |only man/format.UnaryFnList.Rd |only man/inline_concat.Rd | 6 man/inline_dot.Rd |only man/inline_paste0.Rd |only man/inline_qc.Rd | 6 man/pkgfn.Rd |only man/qae.Rd | 5 man/sequence_as_function.Rd |only man/show-PartialFunction-method.Rd |only man/show-PartialNamedFn-method.Rd |only man/show-SrcFunction-method.Rd |only man/show-UnaryFnList-method.Rd |only man/split_at_brace_pairs.Rd |only man/srcfn.Rd |only man/wrapfn.Rd |only tests/testthat/test_assoc.R |only tests/testthat/test_fn_composition.R |only tests/testthat/test_split_braces.R |only vignettes/Function_Objects.Rmd |only 78 files changed, 3567 insertions(+), 890 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use in
photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse
ratios and other derived quantities from spectral data. Local maxima and
minima. Conversion between energy- and photon-based units. Wavelength
interpolation. Astronomical calculations related solar angles and day
length. Colours and vision. This package is part of the
'r4photobiology' suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Titta K. Kotilainen [ctb] (<https://orcid.org/0000-0002-2822-9734>),
Glenn Davis [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.9.24 dated 2018-09-23 and 0.9.25 dated 2018-12-11
DESCRIPTION | 10 MD5 | 88 ++-- NAMESPACE | 1 NEWS | 7 R/copy.attr.R | 32 + R/on-attach.R | 3 R/relative-am.r | 2 R/spct.classes.r | 9 R/spct.fscale.r | 2 R/spct.trim.r | 2 R/sun.calc.r | 7 R/zmspct.classes.R | 20 README.md | 16 build/vignette.rds |binary data/A.illuminant.spct.rda |binary data/D2-FEL-constants.rda |binary data/D65.illuminant.spct.rda |binary data/Ler-leaf-spct.rda |binary data/beesxyz.spct.rda |binary data/black_body.spct.rda |binary data/ccd.spct.rda |binary data/ciev10.spct.rda |binary data/ciev2.spct.rda |binary data/ciexyzCC10.spct.rda |binary data/ciexyzCC2.spct.rda |binary data/ciexyzCMF10.spct.rda |binary data/ciexyzCMF2.spct.rda |binary data/clear.spct.rda |binary data/clear_body.spct.rda |binary data/filter-cps-mspct.rda |binary data/green_leaf.spct.rda |binary data/opaque.spct.rda |binary data/photodiode.spct.rda |binary data/polyester.spct.rda |binary data/sun.daily.data.rda |binary data/sun.daily.spct.rda |binary data/sun.data.rda |binary data/sun.spct.rda |binary data/white-led-spct.rda |binary data/white_body.spct.rda |binary data/yellow.gel.rda |binary inst/doc/userguide1-intro.html | 6 inst/doc/userguide2-radiation.html | 812 +++++++++++++++++++------------------ inst/doc/userguide3-astronomy.html | 64 +- man/copy_attributes.Rd | 6 45 files changed, 586 insertions(+), 501 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-07-05 0.2.6.1
2016-06-29 0.2.6
2016-06-21 0.2.5
Title: RNA Secondary Structure Module Mining, Comparison and Plotting
Description: Provides function for RNA secondary structure plotting, comparison and module mining. Given a RNA secondary structure, you can obtain stem regions, hairpin loops, internal loops, bulge loops and multibranch loops of this RNA structure using this program. They are the basic modules of RNA secondary structure. For each module you get, you can use this program to label the RNA structure with a specific color. You can also use this program to compare two RNA secondary structures to get a score that represents similarity. Reference: Reuter JS, Mathews DH (2010) <doi:10.1186/1471-2105-11-129>.
Author: Zheng HeWei
Maintainer: Zheng HeWei<zhenghw@hrbmu.edu.cn>
Diff between RNAsmc versions 0.3.0 dated 2018-03-19 and 0.4.0 dated 2018-12-11
RNAsmc-0.3.0/RNAsmc/R/compare.R |only RNAsmc-0.3.0/RNAsmc/man/compare.rd |only RNAsmc-0.4.0/RNAsmc/DESCRIPTION | 6 RNAsmc-0.4.0/RNAsmc/MD5 | 24 + RNAsmc-0.4.0/RNAsmc/R/RNAstrCluster.R | 386 ++++++++++++++++++++++++++- RNAsmc-0.4.0/RNAsmc/R/RNAstrPlot.R | 94 ++++-- RNAsmc-0.4.0/RNAsmc/R/bulgeLoopsPlot.R | 16 - RNAsmc-0.4.0/RNAsmc/R/bulge_loop.R | 16 - RNAsmc-0.4.0/RNAsmc/R/externalLoopsPlot.R |only RNAsmc-0.4.0/RNAsmc/R/external_loop.R |only RNAsmc-0.4.0/RNAsmc/R/hairpin_loop.R | 11 RNAsmc-0.4.0/RNAsmc/R/strCompare.R |only RNAsmc-0.4.0/RNAsmc/R/strComparePlot.R |only RNAsmc-0.4.0/RNAsmc/man/externalLoopsPlot.rd |only RNAsmc-0.4.0/RNAsmc/man/external_loop.rd |only RNAsmc-0.4.0/RNAsmc/man/getCompare.rd |only RNAsmc-0.4.0/RNAsmc/man/getSubStr.rd |only RNAsmc-0.4.0/RNAsmc/man/strCompare.rd |only RNAsmc-0.4.0/RNAsmc/man/strComparePlot.rd |only 19 files changed, 469 insertions(+), 84 deletions(-)
Title: Statistical Trending for Medical Devices Surveillance
Description: A collection of common statistical algorithms used in active
surveillance of medical device events. Context includes post-market
surveillance, pharmacovigilance, signal detection and trending, and
regulatory reporting. Primary inputs are device-event time series. Outputs
include trending results with the ability to run multiple algorithms at
once. This package works well with the 'mds' package, but does not require
it.
Author: Gary Chung [aut, cre]
Maintainer: Gary Chung <gchung05@gmail.com>
Diff between mdsstat versions 0.2.0 dated 2018-09-26 and 0.2.1 dated 2018-12-11
mdsstat-0.2.0/mdsstat/R/dpa.R |only mdsstat-0.2.0/mdsstat/R/qc.R |only mdsstat-0.2.0/mdsstat/tests/testthat/test_dpa.R |only mdsstat-0.2.0/mdsstat/tests/testthat/test_qc.R |only mdsstat-0.2.1/mdsstat/DESCRIPTION | 14 mdsstat-0.2.1/mdsstat/MD5 | 32 + mdsstat-0.2.1/mdsstat/NAMESPACE | 6 mdsstat-0.2.1/mdsstat/NEWS.md | 19 - mdsstat-0.2.1/mdsstat/R/cusum.R |only mdsstat-0.2.1/mdsstat/R/prr.R |only mdsstat-0.2.1/mdsstat/R/ror.R |only mdsstat-0.2.1/mdsstat/R/shewhart.R |only mdsstat-0.2.1/mdsstat/data/maude.rda |binary mdsstat-0.2.1/mdsstat/inst/doc/mdsstat_intro.Rmd | 4 mdsstat-0.2.1/mdsstat/inst/doc/mdsstat_intro.html | 332 ++++--------------- mdsstat-0.2.1/mdsstat/man/cusum.Rd |only mdsstat-0.2.1/mdsstat/man/prr.Rd | 13 mdsstat-0.2.1/mdsstat/man/ror.Rd |only mdsstat-0.2.1/mdsstat/man/shewhart.Rd | 6 mdsstat-0.2.1/mdsstat/tests/testthat/test_cusum.R |only mdsstat-0.2.1/mdsstat/tests/testthat/test_prr.R |only mdsstat-0.2.1/mdsstat/tests/testthat/test_ror.R |only mdsstat-0.2.1/mdsstat/tests/testthat/test_shewhart.R |only mdsstat-0.2.1/mdsstat/vignettes/mdsstat_intro.Rmd | 4 24 files changed, 140 insertions(+), 290 deletions(-)
Title: The 'jamovi' Analyses
Description: A suite of common statistical methods such as descriptives,
t-tests, ANOVAs, regression, correlation matrices, proportion tests,
contingency tables, and factor analysis. This package is also useable from
the 'jamovi' statistical spreadsheet (see <https://www.jamovi.org> for more
information).
Author: Ravi Selker, Jonathon Love, Damian Dropmann
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmv versions 0.9.5 dated 2018-11-16 and 0.9.6 dated 2018-12-11
jmv-0.9.5/jmv/data/bugs.csv |only jmv-0.9.5/jmv/man/anova.Rd |only jmv-0.9.6/jmv/DESCRIPTION | 17 +- jmv-0.9.6/jmv/MD5 | 142 +++++++++++---------- jmv-0.9.6/jmv/NAMESPACE | 1 jmv-0.9.6/jmv/R/ancova.b.R | 8 - jmv-0.9.6/jmv/R/ancova.h.R | 198 ++++++++++++++++++------------ jmv-0.9.6/jmv/R/anova.b.R | 2 jmv-0.9.6/jmv/R/anova.h.R | 195 ++++++++++++++++++----------- jmv-0.9.6/jmv/R/anovanp.b.R | 8 + jmv-0.9.6/jmv/R/anovanp.h.R | 32 ++++ jmv-0.9.6/jmv/R/anovaonew.b.R | 8 + jmv-0.9.6/jmv/R/anovaonew.h.R | 38 +++++ jmv-0.9.6/jmv/R/anovarm.h.R | 174 +++++++++++++------------- jmv-0.9.6/jmv/R/anovarmnp.h.R | 12 + jmv-0.9.6/jmv/R/conttables.b.R | 46 +++++- jmv-0.9.6/jmv/R/conttables.h.R | 68 ++++++++-- jmv-0.9.6/jmv/R/conttablespaired.b.R | 10 + jmv-0.9.6/jmv/R/conttablespaired.h.R | 55 ++++++-- jmv-0.9.6/jmv/R/corrmatrix.h.R | 20 ++- jmv-0.9.6/jmv/R/deprecated.R |only jmv-0.9.6/jmv/R/descriptives.b.R | 12 + jmv-0.9.6/jmv/R/descriptives.h.R | 42 +++++- jmv-0.9.6/jmv/R/efa.h.R | 3 jmv-0.9.6/jmv/R/linreg.b.R | 4 jmv-0.9.6/jmv/R/linreg.h.R | 24 +-- jmv-0.9.6/jmv/R/loglinear.b.R | 4 jmv-0.9.6/jmv/R/loglinear.h.R | 7 - jmv-0.9.6/jmv/R/logregbin.b.R | 4 jmv-0.9.6/jmv/R/logregbin.h.R | 12 + jmv-0.9.6/jmv/R/logregmulti.b.R | 4 jmv-0.9.6/jmv/R/logregmulti.h.R | 12 + jmv-0.9.6/jmv/R/logregord.b.R | 4 jmv-0.9.6/jmv/R/logregord.h.R | 11 + jmv-0.9.6/jmv/R/mancova.h.R | 9 - jmv-0.9.6/jmv/R/pca.h.R | 3 jmv-0.9.6/jmv/R/proptest2.h.R | 11 + jmv-0.9.6/jmv/R/proptestn.b.R | 8 + jmv-0.9.6/jmv/R/proptestn.h.R | 38 ++++- jmv-0.9.6/jmv/R/reliability.h.R | 2 jmv-0.9.6/jmv/R/ttestis.b.R | 10 + jmv-0.9.6/jmv/R/ttestis.h.R | 52 ++++++- jmv-0.9.6/jmv/R/ttestones.h.R | 21 ++- jmv-0.9.6/jmv/R/ttestps.b.R | 6 jmv-0.9.6/jmv/R/ttestps.h.R | 14 +- jmv-0.9.6/jmv/build |only jmv-0.9.6/jmv/data/bugs.csv.gz |only jmv-0.9.6/jmv/inst |only jmv-0.9.6/jmv/man/ANOVA.Rd |only jmv-0.9.6/jmv/man/ancova.Rd | 75 ++++++----- jmv-0.9.6/jmv/man/anovaNP.Rd | 12 + jmv-0.9.6/jmv/man/anovaOneW.Rd | 25 +++ jmv-0.9.6/jmv/man/anovaRM.Rd | 68 ++++++---- jmv-0.9.6/jmv/man/anovaRMNP.Rd | 10 + jmv-0.9.6/jmv/man/cfa.Rd | 14 +- jmv-0.9.6/jmv/man/contTables.Rd | 36 +++-- jmv-0.9.6/jmv/man/contTablesPaired.Rd | 25 ++- jmv-0.9.6/jmv/man/corrMatrix.Rd | 28 +++- jmv-0.9.6/jmv/man/descriptives.Rd | 30 +++- jmv-0.9.6/jmv/man/efa.Rd | 12 - jmv-0.9.6/jmv/man/linReg.Rd | 33 ++--- jmv-0.9.6/jmv/man/logLinear.Rd | 2 jmv-0.9.6/jmv/man/logRegBin.Rd | 21 +-- jmv-0.9.6/jmv/man/logRegMulti.Rd | 17 +- jmv-0.9.6/jmv/man/logRegOrd.Rd | 13 + jmv-0.9.6/jmv/man/mancova.Rd | 9 - jmv-0.9.6/jmv/man/pca.Rd | 11 - jmv-0.9.6/jmv/man/propTest2.Rd | 7 - jmv-0.9.6/jmv/man/propTestN.Rd | 19 +- jmv-0.9.6/jmv/man/ttestIS.Rd | 43 ++++-- jmv-0.9.6/jmv/man/ttestOneS.Rd | 22 ++- jmv-0.9.6/jmv/man/ttestPS.Rd | 22 ++- jmv-0.9.6/jmv/tests/testthat/testanova.R | 2 jmv-0.9.6/jmv/tests/testthat/testlinreg.R | 2 jmv-0.9.6/jmv/vignettes |only 75 files changed, 1284 insertions(+), 625 deletions(-)
Title: Verbal Autopsy Data Transform for Use with Various Coding
Algorithms
Description: Enables transformation of Verbal Autopsy data collected with the WHO 2016 questionnaire (versions 1.4.1 & 1.5.1)
for automated coding of Cause of Death using different computer algorithms. Currently supports user-supplied mappings, and
provides unvalidated, experimental-stage mapping definitions to transform to InterVA4, InterVA5, Tariff 2, and InSilicoVA.
This package is made available by WHO, in collaboration with the Swiss Tropical and Public Health Institute and the
Bloomberg Data for Health Initiative.
Author: Eungang Choi [aut],
Sam Clark [aut],
Zehang Li [aut],
Nicolas Maire [aut],
Jason Thomas [aut, cre]
Maintainer: Jason Thomas <jarathomas@gmail.com>
Diff between CrossVA versions 0.9.3 dated 2018-10-24 and 0.9.4 dated 2018-12-11
CrossVA-0.9.3/CrossVA/inst/sample/who151_va_output.csv |only CrossVA-0.9.4/CrossVA/DESCRIPTION | 28 CrossVA-0.9.4/CrossVA/MD5 | 28 CrossVA-0.9.4/CrossVA/R/map_records.R | 2 CrossVA-0.9.4/CrossVA/R/odk2openVA.R | 15 CrossVA-0.9.4/CrossVA/R/odk2openVA_v141.R | 647 ++++++++-------- CrossVA-0.9.4/CrossVA/R/odk2openVA_v151.R | 625 ++++++++------- CrossVA-0.9.4/CrossVA/README.md | 53 - CrossVA-0.9.4/CrossVA/build |only CrossVA-0.9.4/CrossVA/inst/doc |only CrossVA-0.9.4/CrossVA/inst/sample/who141_odk_export.csv |only CrossVA-0.9.4/CrossVA/inst/sample/who151_odk_export.csv |only CrossVA-0.9.4/CrossVA/man/odk2openVA.Rd | 13 CrossVA-0.9.4/CrossVA/man/odk2openVA_v141.Rd | 6 CrossVA-0.9.4/CrossVA/man/odk2openVA_v151.Rd | 6 CrossVA-0.9.4/CrossVA/tests |only CrossVA-0.9.4/CrossVA/vignettes |only 17 files changed, 773 insertions(+), 650 deletions(-)