Title: Create Tables from Different Types of Regression
Description: Create regression tables from generalized linear model(GLM), generalized estimating equation(GEE), generalized linear mixed-effects model(GLMM), Cox proportional hazards model, survey-weighted generalized linear model(svyglm) and survey-weighted Cox model results for publication.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>),
Anpanman [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jstable versions 0.7.9 dated 2019-02-15 and 0.7.10 dated 2019-02-24
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/CreateTableOneJS.R | 6 +++--- R/svyCreateTableOneJS.R | 6 +++--- inst/doc/jstable.html | 32 ++++++++++++++++---------------- 6 files changed, 35 insertions(+), 31 deletions(-)
Title: Simultaneous Generation of Multivariate Data with Poisson and
Normal Marginals
Description: Generates multivariate data with count and continuous variables with a pre-specified correlation matrix. The count and continuous variables are assumed to have Poisson and normal marginals, respectively. The data generation mechanism is a combination of the normal to anything principle and a connection between Poisson and normal correlations in the mixture.
Author: Anup Amatya, Hakan Demirtas, Ran Gao
Maintainer: Ran Gao <rgao8@uic.edu>
Diff between PoisNor versions 1.2 dated 2018-02-11 and 1.3 dated 2019-02-24
PoisNor |only 1 file changed
Title: Multivariate Pseudo-Random Number Generation
Description: Pseudo-random number generation for 11 multivariate distributions: Normal, t, Uniform, Bernoulli, Hypergeometric, Beta (Dirichlet), Multinomial, Dirichlet-Multinomial, Laplace, Wishart, and Inverted Wishart. The details of the method are explained in Demirtas (2004) <DOI:10.22237/jmasm/1099268340>.
Author: Hakan Demirtas, Rawan Allozi, Ran Gao
Maintainer: Ran Gao <rgao8@uic.edu>
Diff between MultiRNG versions 1.2 dated 2019-02-24 and 1.2.1 dated 2019-02-24
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- man/MultiRNG-package.Rd | 4 ++-- 3 files changed, 9 insertions(+), 9 deletions(-)
Title: Object Oriented Extensions
Description: Contains %$% and %$%<- attribute operators, and functions for printing arbitrary S3 objects, compactly but informatively.
Author: Abby Spurdle [cre, aut], Emil Bode [ctb]
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Diff between intoo versions 0.1.0 dated 2018-10-30 and 0.2.0 dated 2019-02-24
intoo-0.1.0/intoo/man/intoo.Rd |only intoo-0.2.0/intoo/DESCRIPTION | 12 - intoo-0.2.0/intoo/MD5 | 8 intoo-0.2.0/intoo/R/intoo.r | 195 ++++++++--------- intoo-0.2.0/intoo/man/rd_1_attribute_operators.Rd |only intoo-0.2.0/intoo/man/rd_2_print_object_information.Rd |only intoo-0.2.0/intoo/man/rd_3_deprecated.Rd |only 7 files changed, 108 insertions(+), 107 deletions(-)
Title: Easy Data Import Using GUI File Picker and Seamless
Communication Between an Excel and R
Description: Choosing any rectangular data file using interactive GUI dialog box, and seamlessly manipulating tidy data between an 'Excel' window and R session.
Author: JooYoung Seo [aut, cre],
Soyoung Choi [aut],
hyun seung Lee [ctb],
Jonghoen Kim [ctb]
Maintainer: JooYoung Seo <jooyoung@psu.edu>
Diff between ezpickr versions 1.0.1 dated 2019-02-16 and 1.0.2 dated 2019-02-24
DESCRIPTION | 14 ++++++------ MD5 | 35 ++++++++++++++++--------------- NAMESPACE | 1 NEWS.md | 12 ++++++++++ R/deprecate.R |only R/pick.R | 33 ++++++++++++++++------------- R/picko.R | 46 +++-------------------------------------- R/view.R | 43 ++++++-------------------------------- R/viewxl.R |only README.md | 34 ++++++++++++++++-------------- inst/NEWS | 12 ++++++++++ inst/doc/ezpickr_vignette.R | 14 ++++++------ inst/doc/ezpickr_vignette.Rmd | 24 ++++++++++----------- inst/doc/ezpickr_vignette.html | 34 +++++++++++++++--------------- man/ezpickr-package.Rd | 4 +-- man/pick.Rd | 6 ++--- man/picko.Rd | 4 +-- man/view.Rd | 11 ++++++--- man/viewxl.Rd |only vignettes/ezpickr_vignette.Rmd | 24 ++++++++++----------- 20 files changed, 161 insertions(+), 190 deletions(-)
Title: POSIX System Utilities
Description: Bindings to system utilities found in most Unix systems such as
POSIX functions which are not part of the Standard C Library.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between unix versions 1.4 dated 2019-02-22 and 1.5 dated 2019-02-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 8 +++++++- src/fork.c | 1 + 4 files changed, 14 insertions(+), 7 deletions(-)
Title: Detection of Outliers in Time Series
Description: Detection of outliers in time series following the
Chen and Liu (1993) <DOI:10.2307/2290724> procedure.
Innovational outliers, additive outliers, level shifts,
temporary changes and seasonal level shifts are considered.
Author: Javier López-de-Lacalle <javlacalle@yahoo.es>
Maintainer: Javier López-de-Lacalle <javlacalle@yahoo.es>
Diff between tsoutliers versions 0.6-6 dated 2017-05-27 and 0.6-8 dated 2019-02-24
tsoutliers-0.6-6/tsoutliers/R/outliers-regressors-stsm.R |only tsoutliers-0.6-6/tsoutliers/man/tsoutliers.Rd |only tsoutliers-0.6-8/tsoutliers/DESCRIPTION | 10 tsoutliers-0.6-8/tsoutliers/MD5 | 53 +- tsoutliers-0.6-8/tsoutliers/NAMESPACE | 5 tsoutliers-0.6-8/tsoutliers/NEWS | 40 + tsoutliers-0.6-8/tsoutliers/R/calendar-effects.R | 17 tsoutliers-0.6-8/tsoutliers/R/discard-outliers.R | 39 + tsoutliers-0.6-8/tsoutliers/R/locate-outliers.R | 76 +-- tsoutliers-0.6-8/tsoutliers/R/outliers-data-frame.R | 2 tsoutliers-0.6-8/tsoutliers/R/outliers-effects.R | 67 +-- tsoutliers-0.6-8/tsoutliers/R/outliers-regressors-arima.R | 24 - tsoutliers-0.6-8/tsoutliers/R/outliers-tstatistics.R | 214 +++++----- tsoutliers-0.6-8/tsoutliers/R/remove-outliers-deprecated.R | 6 tsoutliers-0.6-8/tsoutliers/R/tso.R | 131 +++--- tsoutliers-0.6-8/tsoutliers/build/partial.rdb |binary tsoutliers-0.6-8/tsoutliers/build/vignette.rds |binary tsoutliers-0.6-8/tsoutliers/inst/doc/tsoutliers-intro.R | 13 tsoutliers-0.6-8/tsoutliers/inst/doc/tsoutliers-intro.Rnw | 55 ++ tsoutliers-0.6-8/tsoutliers/inst/doc/tsoutliers-intro.pdf |binary tsoutliers-0.6-8/tsoutliers/man/discard-outliers.Rd | 10 tsoutliers-0.6-8/tsoutliers/man/locate-outliers-loops.Rd | 18 tsoutliers-0.6-8/tsoutliers/man/locate-outliers.Rd | 15 tsoutliers-0.6-8/tsoutliers/man/outliers-effects.Rd | 18 tsoutliers-0.6-8/tsoutliers/man/outliers-regressors.Rd | 4 tsoutliers-0.6-8/tsoutliers/man/outliers-tstatistics.Rd | 13 tsoutliers-0.6-8/tsoutliers/man/remove-outliers-deprecated.Rd | 4 tsoutliers-0.6-8/tsoutliers/man/tso.Rd |only tsoutliers-0.6-8/tsoutliers/vignettes/tsoutliers-intro.Rnw | 55 ++ 29 files changed, 504 insertions(+), 385 deletions(-)
Title: Spatiotemporal Arrays, Raster and Vector Data Cubes
Description: Reading, manipulating, writing and plotting
spatiotemporal arrays (raster and vector data cubes) in R, using GDAL
bindings provided by sf, and NetCDF bindings by ncmeta and RNetCDF.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>),
Michael Sumner [ctb] (<https://orcid.org/0000-0002-2471-7511>),
Etienne Racine [ctb],
Adriano Fantini [ctb],
David Blodgett [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between stars versions 0.2-0 dated 2018-10-25 and 0.3-0 dated 2019-02-24
stars-0.2-0/stars/inst/doc/blog1.R |only stars-0.2-0/stars/inst/doc/blog1.Rmd |only stars-0.2-0/stars/inst/doc/blog1.html |only stars-0.2-0/stars/inst/doc/data_model.R |only stars-0.2-0/stars/inst/doc/data_model.Rmd |only stars-0.2-0/stars/inst/doc/data_model.html |only stars-0.2-0/stars/inst/doc/first.R |only stars-0.2-0/stars/inst/doc/first.Rmd |only stars-0.2-0/stars/inst/doc/first.html |only stars-0.2-0/stars/inst/doc/proxy.R |only stars-0.2-0/stars/inst/doc/proxy.Rmd |only stars-0.2-0/stars/inst/doc/proxy.html |only stars-0.2-0/stars/man/Math.stars.Rd |only stars-0.2-0/stars/man/Ops.stars.Rd |only stars-0.2-0/stars/man/st_write.stars.Rd |only stars-0.2-0/stars/tools |only stars-0.2-0/stars/vignettes/blog1.Rmd |only stars-0.2-0/stars/vignettes/data_model.Rmd |only stars-0.2-0/stars/vignettes/first.Rmd |only stars-0.2-0/stars/vignettes/proxy.Rmd |only stars-0.3-0/stars/DESCRIPTION | 46 - stars-0.3-0/stars/MD5 | 207 +++--- stars-0.3-0/stars/NAMESPACE | 31 stars-0.3-0/stars/NEWS.md | 36 + stars-0.3-0/stars/R/aggregate.R |only stars-0.3-0/stars/R/dimensions.R | 298 ++++++--- stars-0.3-0/stars/R/factors.R | 7 stars-0.3-0/stars/R/init.R | 7 stars-0.3-0/stars/R/intervals.R |only stars-0.3-0/stars/R/ncdf.R | 151 +++- stars-0.3-0/stars/R/ops.R | 36 - stars-0.3-0/stars/R/plot.R | 123 ++- stars-0.3-0/stars/R/proxy.R | 198 ++++-- stars-0.3-0/stars/R/raster.R | 2 stars-0.3-0/stars/R/rasterize.R | 34 - stars-0.3-0/stars/R/read.R | 87 ++ stars-0.3-0/stars/R/sf.R | 158 +++-- stars-0.3-0/stars/R/sp.R |only stars-0.3-0/stars/R/spacetime.R | 51 + stars-0.3-0/stars/R/stars.R | 474 ++++++--------- stars-0.3-0/stars/R/subset.R |only stars-0.3-0/stars/R/tidyverse.R | 94 ++ stars-0.3-0/stars/R/transform.R | 53 + stars-0.3-0/stars/R/values.R |only stars-0.3-0/stars/R/warp.R | 70 +- stars-0.3-0/stars/R/write.R | 61 + stars-0.3-0/stars/R/xts.R |only stars-0.3-0/stars/build/vignette.rds |binary stars-0.3-0/stars/inst/doc/stars1.R |only stars-0.3-0/stars/inst/doc/stars1.Rmd |only stars-0.3-0/stars/inst/doc/stars1.html |only stars-0.3-0/stars/inst/doc/stars2.R |only stars-0.3-0/stars/inst/doc/stars2.Rmd |only stars-0.3-0/stars/inst/doc/stars2.html |only stars-0.3-0/stars/inst/doc/stars3.R |only stars-0.3-0/stars/inst/doc/stars3.Rmd |only stars-0.3-0/stars/inst/doc/stars3.html |only stars-0.3-0/stars/inst/doc/stars4.R |only stars-0.3-0/stars/inst/doc/stars4.Rmd |only stars-0.3-0/stars/inst/doc/stars4.html |only stars-0.3-0/stars/inst/doc/stars5.R |only stars-0.3-0/stars/inst/doc/stars5.Rmd |only stars-0.3-0/stars/inst/doc/stars5.html |only stars-0.3-0/stars/inst/docker/fedora |only stars-0.3-0/stars/inst/docker/rdevel |only stars-0.3-0/stars/inst/nc/bcsd_obs_1999.nc |only stars-0.3-0/stars/inst/nc/plot_bcsd_obs_1999.R |only stars-0.3-0/stars/inst/nc/test_stageiv_xyt.nc |only stars-0.3-0/stars/inst/plumber/client_blog.R | 23 stars-0.3-0/stars/inst/plumber/p1.dbf |only stars-0.3-0/stars/inst/plumber/p1.shp |only stars-0.3-0/stars/inst/plumber/p1.shx |only stars-0.3-0/stars/inst/plumber/server_blog.R | 15 stars-0.3-0/stars/inst/tif/na.tif |only stars-0.3-0/stars/inst/tif/olinda_dem_utm25s.tif.aux.xml |only stars-0.3-0/stars/man/aggregate.stars.Rd |only stars-0.3-0/stars/man/geom_stars.Rd |only stars-0.3-0/stars/man/make_intervals.Rd |only stars-0.3-0/stars/man/ops_stars.Rd |only stars-0.3-0/stars/man/plot.stars.Rd | 26 stars-0.3-0/stars/man/read_ncdf.Rd | 39 - 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Title: Producing and Reproducing Results
Description: A system for embedded scientific computing and reproducible research with R.
The OpenCPU server exposes a simple but powerful HTTP api for RPC and data interchange
with R. This provides a reliable and scalable foundation for statistical services or
building R web applications. The OpenCPU server runs either as a single-user development
server within the interactive R session, or as a multi-user Linux stack based on Apache2.
The entire system is fully open source and permissively licensed. The OpenCPU website
has detailed documentation and example apps.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between opencpu versions 2.1 dated 2018-11-20 and 2.1.1 dated 2019-02-24
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NAMESPACE | 1 - NEWS | 3 +++ R/httpget_info.R | 2 +- R/init.R | 3 ++- R/script.R | 3 +++ R/serve.R | 2 +- R/start.R | 1 - build/vignette.rds |binary inst/doc/opencpu-paper.pdf |binary 11 files changed, 24 insertions(+), 19 deletions(-)
Title: A Kernel Regression-Based Multidimensional Wind Turbine Power
Curve
Description: Provides wind energy practitioners with an effective machine learning-based
tool that estimates a multivariate power curve and predicts the wind power output
for a specific environmental condition.
Author: Yu Ding [aut],
Hoon Hwangbo [aut, cre]
Maintainer: Hoon Hwangbo <hhwangb1@utk.edu>
Diff between kernplus versions 0.1.1 dated 2018-04-05 and 0.1.2 dated 2019-02-24
DESCRIPTION | 14 +++++++------- MD5 | 8 ++++---- R/copyright.R | 4 ++-- R/div_regions.R | 26 ++++++++++++++++---------- R/pred_pwcurv.R | 8 ++++---- 5 files changed, 33 insertions(+), 27 deletions(-)
Title: Change Point Analysis in Functional Data
Description: Change point estimation and detection methods for functional data are implemented using dimension reduction via functional principal component analysis and a fully-functional (norm-based) method. Detecting and dating structural breaks for both dependent and independent functional samples is illustrated along with some basic functional data generating processes.
Author: Ozan Sonmez, Alexander Aue, Gregory Rice
Maintainer: Ozan Sonmez <osonmez@ucdavis.edu>
Diff between fChange versions 0.2.0 dated 2018-11-26 and 0.2.1 dated 2019-02-24
DESCRIPTION | 6 +++--- LICENSE | 2 +- MD5 | 4 ++-- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Converting an Mbox File into a Tibble
Description: Importing and converting an mbox file into a tibble object.
Author: JooYoung Seo [aut, cre],
Soyoung Choi [aut]
Maintainer: JooYoung Seo <jooyoung@psu.edu>
Diff between mboxr versions 0.1.3 dated 2019-01-16 and 0.1.4 dated 2019-02-24
DESCRIPTION | 12 ++--- MD5 | 28 +++++------ NEWS.md | 9 +++ R/merge_mbox_all.R | 8 +-- R/read_mbox.R | 12 ++--- README.md | 58 ++++++++++++------------ inst/NEWS | 8 +++ inst/doc/mboxr_vignette.R | 50 ++++++++++----------- inst/doc/mboxr_vignette.Rmd | 52 ++++++++++----------- inst/doc/mboxr_vignette.html | 64 +++++++++++++-------------- inst/python/__pycache__/mboxR.cpython-36.pyc |binary inst/python/mboxR.py | 5 +- man/merge_mbox_all.Rd | 6 +- man/read_mbox.Rd | 4 - vignettes/mboxr_vignette.Rmd | 52 ++++++++++----------- 15 files changed, 194 insertions(+), 174 deletions(-)
Title: Generating Various Numerical Representation Schemes for Protein
Sequences
Description: Comprehensive toolkit for generating various numerical
features of protein sequences described in Xiao et al. (2015)
<DOI:10.1093/bioinformatics/btv042>. For full functionality,
the software 'ncbi-blast+' is needed, see
<https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE_TYPE=BlastDocs&DOC_TYPE=Download>
for more information.
Author: Nan Xiao [aut, cre] (<https://orcid.org/0000-0002-0250-5673>),
Qing-Song Xu [aut],
Dong-Sheng Cao [aut]
Maintainer: Nan Xiao <me@nanx.me>
Diff between protr versions 1.6-0 dated 2019-02-11 and 1.6-1 dated 2019-02-24
DESCRIPTION | 6 MD5 | 23 +-- NAMESPACE | 1 NEWS.md | 14 ++ R/par-01-parSeqSim.R | 333 ++++++++++++++++++++++++++++++++++++--------------- R/par-02-parGOSim.R | 2 inst/doc/protr.R | 12 - inst/doc/protr.Rmd | 49 +++++-- inst/doc/protr.html | 28 ++-- man/parSeqSim.Rd | 55 ++++---- man/parSeqSimDisk.Rd |only man/twoSeqSim.Rd | 32 ++-- vignettes/protr.Rmd | 49 +++++-- 13 files changed, 410 insertions(+), 194 deletions(-)
Title: World Population Prospects 2017
Description: Provides data from the United Nation's World Population Prospects 2017.
Author: United Nations Population Division
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between wpp2017 versions 1.2-0 dated 2018-03-17 and 1.2-1 dated 2019-02-24
ChangeLog | 4 ++++ DESCRIPTION | 11 ++++++----- MD5 | 19 ++++++++++--------- R |only data/pop.R | 1 - data/popFT.R | 20 +++++++++----------- data/popFTproj.R | 21 +++++++++------------ data/popMT.R | 17 ++++++++--------- data/popMTproj.R | 21 +++++++++------------ data/popproj.R | 1 - man/wpp2017-package.Rd | 4 ++-- 11 files changed, 57 insertions(+), 62 deletions(-)
Title: Time Series with Matrix Profile
Description: A toolkit implementing the Matrix Profile concept that was created by CS-UCR <http://www.cs.ucr.edu/~eamonn/MatrixProfile.html>.
Author: Francisco Bischoff [aut, cre] (<https://orcid.org/0000-0002-5301-8672>),
Michael Yeh [res, ccp, ctb] (<https://orcid.org/0000-0002-9807-2963>),
Diego Silva [res, ccp, ctb] (<https://orcid.org/0000-0002-5184-9413>),
Yan Zhu [res, ccp, ctb] (<https://orcid.org/0000-0002-5952-2108>),
Hoang Dau [res, ccp, ctb] (<https://orcid.org/0000-0003-2439-5185>)
Maintainer: Francisco Bischoff <fbischoff@med.up.pt>
Diff between tsmp versions 0.3.2 dated 2018-10-23 and 0.3.4 dated 2019-02-24
DESCRIPTION | 8 MD5 | 190 - NAMESPACE | 9 NEWS | 18 NEWS.md | 16 R/annotations.R | 640 ++--- R/find-chains.R | 139 - R/find-discord.R |only R/find-motifs.R | 72 R/fluss.R | 364 +-- R/mass-pre.R | 123 - R/mass.R | 107 R/misc.R | 1879 ++++++++-------- R/mp-fluss-data.R | 52 R/mp-gait-data.R | 20 R/mp-meat-data.R | 66 R/mp-test-data.R | 46 R/mp-toy-data.R | 34 R/mstomp-par.R | 678 ++--- R/mstomp.R | 639 ++--- R/plot.R | 166 + R/print.R | 543 ++-- R/salient.R | 939 ++++--- R/scrimp.R | 647 ++--- R/sdts-predict.R | 378 +-- R/sdts-train.R | 715 +++--- R/simple.R | 633 ++--- R/stamp-par.R | 428 +-- R/stamp.R | 441 +-- R/stomp-par.R | 590 ++--- R/stomp.R | 489 ++-- R/tsmp.R | 394 +-- R/utils-pipe.R | 46 R/valmod.R |only README.md | 18 build/vignette.rds |binary inst/WORDLIST | 236 +- inst/doc/press.Rmd | 156 - inst/doc/press.html | 28 man/as.matrixprofile.Rd | 13 man/av_complexity.Rd | 1 man/av_hardlimit_artifact.Rd | 1 man/av_motion_artifact.Rd | 1 man/av_stop_word.Rd | 1 man/av_zerocrossing.Rd | 1 man/fast_movavg.Rd | 2 man/fast_movsd.Rd | 2 man/find_chains.Rd | 3 man/find_discord.Rd |only man/find_motif.Rd | 2 man/mass.Rd | 8 man/mass_pre.Rd | 12 man/mstomp.Rd | 12 man/plot.Rd | 9 man/plot_arcs.Rd | 1 man/salient_score.Rd | 10 man/salient_subsequences.Rd | 1 man/scrimp.Rd | 4 man/sdts_predict.Rd | 4 man/sdts_score.Rd | 3 man/sdts_train.Rd | 3 man/simple_fast.Rd | 1 man/stamp.Rd | 4 man/stomp.Rd | 3 man/tsmp.Rd | 20 man/valmod.Rd |only tests/figs/deps.txt | 8 tests/figs/testing-plots/plot-arc-count.svg | 348 +- tests/figs/testing-plots/plot-arcs.svg | 18 tests/figs/testing-plots/plot-chain.svg | 194 - tests/figs/testing-plots/plot-fluss.svg | 174 - tests/figs/testing-plots/plot-matrix-profile.svg | 210 - tests/figs/testing-plots/plot-motif.svg | 326 +- tests/figs/testing-plots/plot-multi-matrix-profile.svg | 540 ++-- tests/figs/testing-plots/plot-multimotif.svg | 344 +- tests/figs/testing-plots/plot-salient.svg | 544 ++-- tests/figs/testing-plots/plot-simple-matrix-profile.svg | 54 tests/fontconfig-helper.R | 12 tests/prints/motif-print | 2 tests/prints/salient-print | 22 tests/prints/smp-print | 14 tests/spelling.R | 14 tests/testthat.R | 8 tests/testthat/test-annotation.R | 88 tests/testthat/test-basics.R | 104 tests/testthat/test-find-chains.R | 32 tests/testthat/test-fluss.R | 56 tests/testthat/test-misc.R | 68 tests/testthat/test-mstomp-search.R | 70 tests/testthat/test-plot-print.R | 136 - tests/testthat/test-salient.R | 76 tests/testthat/test-sdts.R | 96 tests/testthat/test-simple.R | 102 tests/testthat/test-stamps.R | 344 +- tests/testthat/test-stomp-search.R | 7 tests/testthat/test-stress-stamps.R | 130 - tests/update-version.R | 106 vignettes/press.Rmd | 156 - 98 files changed, 8456 insertions(+), 8016 deletions(-)
Title: Semi-Supervised Model for Geographical Document Classification
Description: Semi-supervised model for geographical document classification (Watanabe 2018) <doi:10.1080/21670811.2017.1293487>.
This package currently contains seed dictionaries in English, German, French, Spanish, Japanese, Russian and Chinese (Simplified and Traditional).
Author: Kohei Watanabe [aut, cre, cph],
Stefan Müller [aut],
Dani Madrid-Morales [aut],
Katerina Tertytchnaya [aut],
Ke Cheng [aut],
Chung-hong Chan [aut],
Claude Grasland [aut]
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between newsmap versions 0.6 dated 2018-09-03 and 0.6.4 dated 2019-02-24
DESCRIPTION | 21 +++++--- MD5 | 32 +++++++----- NEWS.md | 19 +++++-- R/data.R | 24 +++++++++ R/textmodel_newsmap.R | 6 +- README.md | 78 ++++++++++++++++++++++--------- data/data_dictionary_newsmap_de.RData |binary data/data_dictionary_newsmap_en.RData |binary data/data_dictionary_newsmap_es.RData |binary data/data_dictionary_newsmap_fr.RData |only data/data_dictionary_newsmap_ja.RData |binary data/data_dictionary_newsmap_ru.RData |binary data/data_dictionary_newsmap_zh_cn.RData |only data/data_dictionary_newsmap_zh_tw.RData |only man/data_dictionary_newsmap_fr.Rd |only man/data_dictionary_newsmap_zh_cn.Rd |only man/data_dictionary_newsmap_zh_tw.Rd |only man/textmodel_newsmap.Rd | 8 +-- tests/testthat/test-data.R | 10 +++ tests/testthat/test-textmodel_newsmap.R | 66 +++++++++++++++++++++++--- 20 files changed, 206 insertions(+), 58 deletions(-)
Title: Methods for the Indirect Estimation of Bilateral Migration
Description: Indirect methods for estimating bilateral migration flows in the presence of partial or missing data, including the estimation of bilateral migration flows from changes in bilateral migrant stock tables (e.g. Abel (2013) <doi:10.4054/DemRes.2013.28.18>).
Author: Guy J. Abel [aut, cre] (<https://orcid.org/0000-0002-4893-5687>)
Maintainer: Guy J. Abel <g.j.abel@gmail.com>
Diff between migest versions 1.7.4 dated 2018-02-05 and 1.8.0 dated 2019-02-24
migest-1.7.4/migest/R/ffs.R |only migest-1.7.4/migest/R/ipf3_diag.R |only migest-1.7.4/migest/R/od_sum.R |only migest-1.7.4/migest/man/ffs.Rd |only migest-1.7.4/migest/man/ipf3_diag.Rd |only migest-1.7.4/migest/man/od_sum.Rd |only migest-1.8.0/migest/DESCRIPTION | 16 migest-1.8.0/migest/MD5 | 90 - migest-1.8.0/migest/NAMESPACE | 14 migest-1.8.0/migest/R/birth_mat.R |only migest-1.8.0/migest/R/block_matrix.R | 2 migest-1.8.0/migest/R/cm2.R | 30 migest-1.8.0/migest/R/cm3.R | 18 migest-1.8.0/migest/R/death_mat.R |only migest-1.8.0/migest/R/ffs_demo.R |only migest-1.8.0/migest/R/ffs_diff.R | 47 migest-1.8.0/migest/R/ffs_rates.R |only migest-1.8.0/migest/R/ipf2.R | 28 migest-1.8.0/migest/R/ipf2_block.R | 48 migest-1.8.0/migest/R/ipf2_stripe.R | 42 migest-1.8.0/migest/R/ipf3.R | 32 migest-1.8.0/migest/R/ipf3_qi.R | 60 migest-1.8.0/migest/R/ipf_net.R | 52 migest-1.8.0/migest/R/ipf_seed.R |only migest-1.8.0/migest/R/match_pob_tot.R |only migest-1.8.0/migest/R/net_param.R | 28 migest-1.8.0/migest/R/net_scale.R | 12 migest-1.8.0/migest/R/net_sum.R | 10 migest-1.8.0/migest/R/quadratic_eqn.R | 10 migest-1.8.0/migest/R/rescale_integer_sum.R |only migest-1.8.0/migest/R/rescale_nb.R |only migest-1.8.0/migest/R/rescale_net.R |only migest-1.8.0/migest/R/sum_net.R |only migest-1.8.0/migest/R/sum_od.R |only migest-1.8.0/migest/inst/imr/reg_flow.csv | 1784 ++++++++++++------------- migest-1.8.0/migest/man/birth_mat.Rd |only migest-1.8.0/migest/man/block_matrix.Rd | 2 migest-1.8.0/migest/man/cm2.Rd | 23 migest-1.8.0/migest/man/cm3.Rd | 10 migest-1.8.0/migest/man/death_mat.Rd |only migest-1.8.0/migest/man/ffs_demo.Rd |only migest-1.8.0/migest/man/ffs_diff.Rd | 35 migest-1.8.0/migest/man/ffs_rates.Rd |only migest-1.8.0/migest/man/ipf2.Rd | 18 migest-1.8.0/migest/man/ipf2_block.Rd | 21 migest-1.8.0/migest/man/ipf2_stripe.Rd | 19 migest-1.8.0/migest/man/ipf3.Rd | 18 migest-1.8.0/migest/man/ipf3_qi.Rd | 24 migest-1.8.0/migest/man/ipf_net.Rd | 24 migest-1.8.0/migest/man/ipf_seed.Rd |only migest-1.8.0/migest/man/match_pob_tot.Rd |only migest-1.8.0/migest/man/migest-package.Rd | 6 migest-1.8.0/migest/man/net_param.Rd | 6 migest-1.8.0/migest/man/net_sum.Rd | 2 migest-1.8.0/migest/man/quadratic_eqn.Rd | 2 migest-1.8.0/migest/man/rescale_integer_sum.Rd |only migest-1.8.0/migest/man/rescale_nb.Rd |only migest-1.8.0/migest/man/rescale_net.Rd |only migest-1.8.0/migest/man/sum_net.Rd |only migest-1.8.0/migest/man/sum_od.Rd |only 60 files changed, 1316 insertions(+), 1217 deletions(-)
Title: Tools to Visualize, Manipulate, and Summarize MCMC Output
Description: Performs key functions for MCMC analysis using minimal code - visualizes, manipulates, and summarizes MCMC output. Functions support simple and straightforward subsetting of model parameters within the calls, and produce presentable and 'publication-ready' output. MCMC output may be derived from Bayesian model output fit with JAGS, Stan, or other MCMC samplers.
Author: Casey Youngflesh [aut, cre] (<https://orcid.org/0000-0001-6343-3311>),
Christian Che-Castaldo [ctb],
Tyler Hardy [ctb]
Maintainer: Casey Youngflesh <caseyyoungflesh@gmail.com>
Diff between MCMCvis versions 0.12.1 dated 2019-01-18 and 0.12.2 dated 2019-02-24
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/MCMCsummary.R | 2 +- inst/doc/MCMCvis.html | 10 +++++----- 5 files changed, 18 insertions(+), 13 deletions(-)
Title: Extended Classification of Weather Types
Description: Provides a gridded classification of weather types by applying the Jenkinson and Collison classification. For a given region (it can be either local region or the whole map),it computes at each grid the 11 weather
types during the period considered for the analysis. See Otero et al., (2017) <doi:10.1007/s00382-017-3705-y> for more information.
Author: Noelia Otero
Maintainer: Noelia Otero <noeli1680@gmail.com>
Diff between jcext versions 0.1 dated 2018-01-22 and 0.1.1 dated 2019-02-24
DESCRIPTION | 6 +- MD5 | 6 +- R/get_div.R | 56 ++++++++++++------------- R/getname_hyb.R | 122 ++++++++++++++++++++++++++++---------------------------- 4 files changed, 95 insertions(+), 95 deletions(-)
Title: Cardinal to Ordinal Number & Date Conversion
Description: Language specific cardinal to ordinal number conversion.
Author: Damian W. Betebenner [aut, cre],
Andrew Martin [ctb],
Jeff Erickson [ctb]
Maintainer: Damian W. Betebenner <dbetebenner@nciea.org>
Diff between toOrdinal versions 1.0-0.0 dated 2017-07-18 and 1.1-0.0 dated 2019-02-24
DESCRIPTION | 10 MD5 | 30 +- NAMESPACE | 1 R/toOrdinalDate.R |only R/zzz.R | 2 build/vignette.rds |binary inst/CITATION | 8 inst/NEWS | 24 + inst/doc/toOrdinal.R | 4 inst/doc/toOrdinal.Rmd | 15 + inst/doc/toOrdinal.html | 347 +++++++++++++++++++++++----- man/toOrdinal-package.Rd | 4 man/toOrdinalDate.Rd |only tests/testthat/test_toOrdinalDate_english.R |only vignettes/releases/toOrdinal-0.0-1.Rmd | 14 - vignettes/releases/toOrdinal-1.0-0.0.Rmd | 9 vignettes/releases/toOrdinal-1.1-0.0.Rmd |only vignettes/toOrdinal.Rmd | 15 + 18 files changed, 386 insertions(+), 97 deletions(-)
Title: Taxonomic Information from Around the Web
Description: Interacts with a suite of web 'APIs' for taxonomic tasks,
such as getting database specific taxonomic identifiers, verifying
species names, getting taxonomic hierarchies, fetching downstream and
upstream taxonomic names, getting taxonomic synonyms, converting
scientific to common names and vice versa, and more.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>),
Eduard Szoecs [aut],
Zachary Foster [aut],
Zebulun Arendsee [aut],
Carl Boettiger [ctb],
Karthik Ram [ctb],
Ignasi Bartomeus [ctb],
John Baumgartner [ctb],
James O'Donnell [ctb],
Jari Oksanen [ctb],
Bastian Greshake Tzovaras [ctb],
Philippe Marchand [ctb],
Vinh Tran [ctb],
Maëlle Salmon [ctb],
Gaopeng Li [ctb],
rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between taxize versions 0.9.5 dated 2019-01-30 and 0.9.6 dated 2019-02-24
DESCRIPTION | 6 MD5 | 320 NAMESPACE | 13 NEWS.md | 25 R/apg.R | 3 R/bold_search.R | 17 R/children.R | 3 R/classification.R | 152 R/col_children.R | 3 R/col_search.R | 173 R/col_search_paginate.R |only R/comm2sci.R | 10 R/downstream.R | 3 R/eol_dataobjects.R | 1 R/eol_pages.R | 1 R/eol_search.R | 1 R/eubon.R | 2 R/eubon_capabilities.R | 2 R/eubon_children.R | 2 R/eubon_hierarchy.R | 2 R/fungorum.R | 2 R/gbif_helpers.R | 6 R/gbif_name_usage.R | 2 R/gbif_parse.R | 3 R/genbank2uid.R | 6 R/get_boldid.R | 14 R/get_colid.R | 106 R/get_eolid.R | 113 R/get_gbifid.R | 7 R/get_ids.R | 111 R/get_iucn.R | 2 R/get_natservid.R | 8 R/get_nbnid.R | 16 R/get_pow.R |only R/get_tolid.R | 15 R/get_tpsid.R | 27 R/get_tsn.R | 96 R/get_uid.R | 60 R/get_wiki.R | 33 R/get_wormsid.R | 38 R/getkey.R | 31 R/gni_details.R | 14 R/gni_parse.R | 2 R/gni_search.R | 2 R/gnr_datasources.R | 34 R/gnr_resolve.R | 13 R/http.R | 10 R/id2name.R | 6 R/ion.R | 2 R/iplant_resolve.R | 2 R/ipni_search.R | 4 R/itis_downstream.R | 2 R/iucn_getname.R | 3 R/iucn_summary.R | 14 R/key_helpers.R | 107 R/lowest_common.R | 3 R/nbn_classification.R | 2 R/nbn_search.R | 3 R/ncbi_children.R | 7 R/ncbi_downstream.R | 3 R/ncbi_get_taxon_summary.R | 5 R/ncbi_getbyid.R | 3 R/ncbi_getbyname.R | 6 R/ncbi_search.R | 3 R/ping.R | 2 R/plantminer.R | 3 R/pow_search.R |only R/sci2comm.R | 7 R/scrapenames.r | 5 R/synonyms.R | 5 R/tax_agg.R | 3 R/tax_name.R | 5 R/tax_rank.R | 3 R/taxize-authentication.R |only R/taxize-package.R | 38 R/tnrs.R | 4 R/tnrs_sources.r | 2 R/tol_id2name.R | 2 R/tp_summary.R | 3 R/tpl_families.r | 2 R/tpl_get.r | 2 R/vascan_search.r | 19 R/zzz.R | 35 README.md | 91 build/vignette.rds |binary data/species_plantarum_binomials.rda |only inst/doc/name_cleaning.Rmd | 44 inst/doc/name_cleaning.html | 44 inst/doc/taxize_case_study.Rmd |only inst/doc/taxize_case_study.html |only inst/doc/taxize_vignette.Rmd | 72 inst/doc/taxize_vignette.html | 69 inst/vign/name_cleaning.md | 44 inst/vign/taxize_case_study.Rmd |only inst/vign/taxize_case_study.md |only inst/vign/taxize_vignette.md | 72 man/children.Rd | 3 man/classification.Rd | 35 man/col_search.Rd | 14 man/col_search_paginate.Rd |only man/comm2sci.Rd | 3 man/downstream.Rd | 3 man/genbank2uid.Rd | 3 man/get_boldid.Rd | 13 man/get_colid.Rd | 85 man/get_eolid.Rd | 36 man/get_gbifid.Rd | 7 man/get_ids.Rd | 68 man/get_iucn.Rd | 7 man/get_natservid.Rd | 7 man/get_nbnid.Rd | 7 man/get_pow.Rd |only man/get_tolid.Rd | 7 man/get_tpsid.Rd | 9 man/get_tsn.Rd | 32 man/get_uid.Rd | 11 man/get_wiki.Rd | 7 man/get_wormsid.Rd | 7 man/getkey.Rd | 29 man/gnr_datasources.Rd | 24 man/gnr_resolve.Rd | 12 man/id2name.Rd | 3 man/iucn_getname.Rd | 3 man/iucn_summary.Rd | 2 man/key_helpers.Rd | 38 man/lowest_common.Rd | 3 man/ncbi_children.Rd | 3 man/ncbi_downstream.Rd | 3 man/ncbi_get_taxon_summary.Rd | 3 man/pow_lookup.Rd |only man/pow_search.Rd |only man/sci2comm.Rd | 4 man/species_plantarum_binomials.Rd |only man/synonyms.Rd | 3 man/tax_agg.Rd | 3 man/tax_name.Rd | 3 man/tax_rank.Rd | 3 man/taxize-authentication.Rd |only man/vascan_search.Rd | 4 tests/fixtures/classification_pow.yml |only tests/fixtures/classification_pow_cbind_rbind.yml |only tests/fixtures/classification_pow_get_fxn.yml |only tests/fixtures/classification_pow_more_name_egs.yml |only tests/fixtures/classification_pow_no_results.yml |only tests/fixtures/classification_pow_passing_id.yml |only tests/fixtures/col_search.yml | 4912 ++++++------ tests/fixtures/col_search_paginate.yml |only tests/fixtures/downstream_rows_param.yml | 3584 ++------ tests/fixtures/get_pow.yml |only tests/fixtures/get_pow_ask_arg.yml |only tests/fixtures/get_wormsid_multiple_exact_matches_found.yml |only tests/fixtures/gnr_datasources.yml |only tests/fixtures/pow_lookup.yml |only tests/fixtures/pow_lookup_include_param.yml |only tests/fixtures/pow_search.yml |only tests/testthat/Rplots.pdf |binary tests/testthat/test-classification-pow.R |only tests/testthat/test-classification.R | 2 tests/testthat/test-col_search.R | 5 tests/testthat/test-col_search_paginate.R |only tests/testthat/test-downstream.R | 2 tests/testthat/test-get_boldid.R | 2 tests/testthat/test-get_colid.R | 2 tests/testthat/test-get_eolid.R | 37 tests/testthat/test-get_gbifid.R | 2 tests/testthat/test-get_natservid.R | 2 tests/testthat/test-get_pow.R |only tests/testthat/test-get_tpsid.R | 2 tests/testthat/test-get_tsn.R | 2 tests/testthat/test-get_uid.R | 2 tests/testthat/test-get_wormsid.R | 13 tests/testthat/test-gnr_datasources.R | 25 tests/testthat/test-iucn_summary.R | 19 tests/testthat/test-key_helpers.R | 4 tests/testthat/test-pow_search.R |only vignettes/name_cleaning.Rmd | 44 vignettes/taxize_case_study.Rmd |only vignettes/taxize_vignette.Rmd | 72 178 files changed, 5117 insertions(+), 6384 deletions(-)
Title: Construct Process Maps Using Event Data
Description: Visualize of process maps based on
event logs, in the form of directed graphs. Part of the 'bupaR' framework.
Author: Gert Janssenswillen [aut, cre],
Benoît Depaire [ctb],
Felix Mannhardt [ctb],
Thijs Beuving [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between processmapR versions 0.3.2 dated 2018-07-03 and 0.3.3 dated 2019-02-24
processmapR-0.3.2/processmapR/man/plot.precedence_matrix.Rd |only processmapR-0.3.3/processmapR/DESCRIPTION | 10 processmapR-0.3.3/processmapR/MD5 | 43 - processmapR-0.3.3/processmapR/NAMESPACE | 8 processmapR-0.3.3/processmapR/R/create_base_precedence.R |only processmapR-0.3.3/processmapR/R/custom.R | 60 ++ processmapR-0.3.3/processmapR/R/dotted_chart.R | 32 + processmapR-0.3.3/processmapR/R/frequency.R | 133 +++++ processmapR-0.3.3/processmapR/R/performance.R | 127 ++++ processmapR-0.3.3/processmapR/R/precedence_matrix.R | 49 + processmapR-0.3.3/processmapR/R/precedence_matrix.plot.R | 163 +++--- processmapR-0.3.3/processmapR/R/process_map.R | 308 +++--------- processmapR-0.3.3/processmapR/R/process_matrix.R |only processmapR-0.3.3/processmapR/R/trace_explorer.R | 86 ++- processmapR-0.3.3/processmapR/R/utils.R | 9 processmapR-0.3.3/processmapR/inst/doc/processmapr.html | 4 processmapR-0.3.3/processmapR/man/custom.Rd | 5 processmapR-0.3.3/processmapR/man/dotted_chart.Rd | 5 processmapR-0.3.3/processmapR/man/frequency.Rd | 6 processmapR-0.3.3/processmapR/man/performance.Rd | 11 processmapR-0.3.3/processmapR/man/plot.process_matrix.Rd |only processmapR-0.3.3/processmapR/man/precedence_matrix.Rd | 7 processmapR-0.3.3/processmapR/man/process_map.Rd | 27 - processmapR-0.3.3/processmapR/man/process_matrix.Rd |only processmapR-0.3.3/processmapR/man/trace_explorer.Rd | 17 25 files changed, 729 insertions(+), 381 deletions(-)
Title: Bootstrap Methods for Network Inference
Description: Functions for analysis of network objects, which are imported or simulated by the package. The non-parametric methods of analysis center on snowball and bootstrap sampling for estimating functions of network degree distribution. For other parameters of interest, see, e.g., 'bootnet' package.
Author: Leticia Ramirez-Ramirez [aut],
Kusha Nezafati [aut],
Yuzhou Chen [aut],
Vyacheslav Lyubchich [aut, cre],
Yulia R. Gel [aut]
Maintainer: Vyacheslav Lyubchich <lyubchich@umces.edu>
Diff between snowboot versions 1.0.0 dated 2018-10-19 and 1.0.1 dated 2019-02-24
DESCRIPTION | 10 +++++----- MD5 | 40 ++++++++++++++++++++-------------------- R/boot_ci.R | 2 +- R/boot_dd.R | 3 ++- R/data.R | 2 +- R/lsmi.R | 5 +++-- R/lsmi_dd.R | 1 + R/lsmi_union.R | 3 ++- R/plot.snowboot.R | 8 ++++++-- R/vertboot.R | 8 +++++--- build/partial.rdb |binary inst/REFERENCES.bib | 10 ++++++++++ man/artificial_networks.Rd | 2 +- man/boot_ci.Rd | 2 +- man/boot_dd.Rd | 3 ++- man/lsmi.Rd | 5 +++-- man/lsmi_cv.Rd | 2 +- man/lsmi_dd.Rd | 1 + man/lsmi_union.Rd | 3 ++- man/plot.snowboot.Rd | 4 ++++ man/vertboot.Rd | 4 +++- 21 files changed, 74 insertions(+), 44 deletions(-)
Title: Create Reproducible Research Projects
Description: Creates reproducible academic projects with integrated academic elements, including datasets, references, codes, images, manuscripts, dissertations, slides and so on. These elements are well connected so that they can be easily synchronized and updated.
Author: Peng Zhao [aut, cre]
Maintainer: Peng Zhao <pzhao@pzhao.net>
Diff between rosr versions 0.0.4 dated 2019-02-13 and 0.0.5 dated 2019-02-24
DESCRIPTION | 8 ++--- MD5 | 14 +++++----- R/begin.R | 5 ++- R/main.R | 4 +- inst/skeleton/manuscript/rticles/copernicus_article/copernicus_article.Rmd | 1 man/create_rosr.Rd | 2 - man/create_website.Rd | 2 - man/install_packages.Rd | 4 ++ 8 files changed, 22 insertions(+), 18 deletions(-)
Title: Language Server Protocol
Description: An implementation of the Language Server Protocol for R. The Language Server protocol is used by an editor client to integrate features like auto completion. See <https://microsoft.github.io/language-server-protocol> for details.
Author: Randy Lai
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between languageserver versions 0.2.5 dated 2018-09-10 and 0.2.6 dated 2019-02-24
DESCRIPTION | 14 +++++++------- MD5 | 24 ++++++++++++------------ NEWS.md | 11 +++++++++++ R/capabilities.R | 7 ++++++- R/completion.R | 18 +++++++++++++++--- R/diagnostics.R | 10 +++++----- R/document.R | 31 ++++++++++++++++++++++++------- R/handlers-general.R | 12 +++++++----- R/handlers-langfeatures.R | 31 +++++++++++++++++++++++++++++++ R/handlers-workspace.R | 9 +++++++++ R/hover.R | 11 +++++++++-- R/workspace.R | 9 ++++++++- README.md | 24 +++++++----------------- 13 files changed, 151 insertions(+), 60 deletions(-)
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Title: Univariate Pseudo-Random Number Generation
Description: Pseudo-random number generation of 17 univariate distributions.
Author: Hakan Demirtas, Rawan Allozi, Ran Gao
Maintainer: Ran Gao <rgao8@uic.edu>
Diff between UnivRNG versions 1.1 dated 2018-01-10 and 1.2 dated 2019-02-24
DESCRIPTION | 13 ++++++------- MD5 | 4 ++-- man/UnivRNG-package.Rd | 12 ++++++------ 3 files changed, 14 insertions(+), 15 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 2.0.3 dated 2018-12-11 and 2.0.4 dated 2019-02-24
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/Plot.PP.R | 13 +++++++++---- man/MVar.pt-package.Rd | 4 ++-- 4 files changed, 18 insertions(+), 13 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 2.0.3 dated 2018-12-11 and 2.0.4 dated 2019-02-24
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/Plot.PP_English.R | 7 +++++-- man/MVar-package.Rd | 4 ++-- 4 files changed, 14 insertions(+), 11 deletions(-)
Title: Multivariate Pseudo-Random Number Generation
Description: Pseudo-random number generation for 11 multivariate distributions: Normal, t, Uniform, Bernoulli, Hypergeometric, Beta (Dirichlet), Multinomial, Dirichlet-Multinomial, Laplace, Wishart, and Inverted Wishart.
Author: Hakan Demirtas, Rawan Allozi, Ran Gao
Maintainer: Ran Gao <rgao8@uic.edu>
Diff between MultiRNG versions 1.1 dated 2018-01-10 and 1.2 dated 2019-02-24
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- man/MultiRNG-package.Rd | 12 ++++++------ 3 files changed, 14 insertions(+), 14 deletions(-)
Title: Mass Spectrometry Tools
Description: Common mass spectrometry tools described in John Roboz (2013) <doi:10.1201/b15436>. It allows checking element
isotopes, calculating (isotope labelled) exact monoisitopic mass, m/z values and mass accuracy, and inspecting possible contaminant mass peaks,
examining possible adducts in electrospray ionization (ESI) and matrix-assisted laser desorption ionization (MALDI)
ion sources.
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Diff between MSbox versions 1.1.1 dated 2018-07-22 and 1.2.0 dated 2019-02-24
DESCRIPTION | 12 +++---- MD5 | 46 +++++++++++++++------------- NAMESPACE | 2 - R/Adduct.R | 13 ++++---- R/Element_Isotope.R | 79 +++++++++++++++++++++++++------------------------ R/Iso_mass.R | 1 R/Iso_mz.R | 1 R/contaminant.R | 83 +++++++++++++++++++++++++++------------------------- R/get_formula.R | 64 ++++++++++++++++++++++++++++------------ R/mass.R | 1 R/mz.R | 1 R/ppm.R | 3 + R/sysdata.rda |binary R/what.R |only README.md | 10 +++--- man/E_iso.Rd | 3 + man/Iso_mass.Rd | 3 + man/Iso_mz.Rd | 3 + man/adduct.Rd | 3 + man/contam.Rd | 3 + man/formula.Rd | 4 ++ man/mass.Rd | 3 + man/mz.Rd | 3 + man/ppm.Rd | 5 ++- man/what.Rd |only 25 files changed, 209 insertions(+), 137 deletions(-)
Title: Nonparametric Methods for Generating High Quality Comparative
Effectiveness Evidence
Description: Implements novel nonparametric approaches to address
biases and confounding when comparing treatments or exposures in
observational studies of outcomes. While designed and appropriate for use
in studies involving medicine and the life sciences, the package can be
used in other situations involving outcomes with multiple confounders.
The package implements a family of methods for non-parametric bias correction
when comparing treatments in observational studies, including survival
analysis settings, where competing risks and/or censoring may be present.
The approach extends to bias-corrected personalized predictions of treatment
outcome differences, and analysis of heterogeneity of treatment effect-sizes
across patient subgroups.
Author: Nicolas R. Lauve [aut],
Stuart J. Nelson [aut],
S. Stanley Young [aut],
Robert L. Obenchain [aut],
Melania Pintilie [ctb],
Martin Kutz [ctb],
Christophe G. Lambert [aut, cre]
Maintainer: Christophe G. Lambert <cglambert@unm.edu>
Diff between LocalControl versions 1.1.1 dated 2018-06-02 and 1.1.2 dated 2019-02-24
DESCRIPTION | 28 +- MD5 | 70 ++--- NEWS.md | 8 R/localControl.R | 27 -- build/vignette.rds |binary data/cardSim.rda |binary inst/doc/LocalControl-jss-2018.R | 283 +++++++++++---------- inst/doc/LocalControl-jss-2018.Rnw | 336 +++++++++++--------------- inst/doc/LocalControl-jss-2018.pdf |binary man/LocalControl.Rd | 11 man/LocalControlNearestNeighborsConfidence.Rd | 2 man/plot.LocalControlCR.Rd | 4 man/plot.LocalControlCS.Rd | 2 src/LocalControl.cpp | 121 +++++---- vignettes/LocalControl-jss-2018.Rnw | 336 +++++++++++--------------- vignettes/calcs/FHSPlotLines.rds |binary vignettes/calcs/FHSSummary.rds |binary vignettes/calcs/allRands.rds |binary vignettes/calcs/ccc.rds |binary vignettes/calcs/ffltdf.rds |binary vignettes/calcs/ffltdv.rds |binary vignettes/calcs/ffvc.rds |binary vignettes/calcs/linCI.rds |binary vignettes/calcs/linRad33.rds |binary vignettes/calcs/linRes.rds |binary vignettes/calcs/linSummary.rds |binary vignettes/calcs/lindnerResults.rds |binary vignettes/calcs/localoutcomes.rds |binary vignettes/calcs/resultSummary.rds |binary vignettes/calcs/sSimFTs.rds |binary vignettes/calcs/sSimT0R1.rds |binary vignettes/calcs/sSimT0R21.rds |binary vignettes/calcs/sSimT1R1.rds |binary vignettes/calcs/sSimT1R21.rds |binary vignettes/calcs/xSultsT0.rds |binary vignettes/calcs/xSultsT1.rds |binary 36 files changed, 589 insertions(+), 639 deletions(-)
Title: Colour Schemes for Archaeological Data Visualization
Description: Colour schemes for archaeological data visualization. This package
provides Paul Tol's colour schemes and several thematic palettes (geologic
timescale, FAO soils, etc.) with scales for 'ggplot2'.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>),
Brice Lebrun [ctb] (<https://orcid.org/0000-0001-7503-8685>)
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between khroma versions 1.0.0 dated 2018-10-19 and 1.1.0 dated 2019-02-24
khroma-1.0.0/khroma/inst/examples/palettes.R |only khroma-1.0.0/khroma/inst/examples/stratigraphy.R |only khroma-1.1.0/khroma/DESCRIPTION | 38 +++-- khroma-1.1.0/khroma/MD5 | 45 ++++-- khroma-1.1.0/khroma/NAMESPACE | 33 ++++ khroma-1.1.0/khroma/R/colour.R | 36 +++-- khroma-1.1.0/khroma/R/ggplot2-science.R |only khroma-1.1.0/khroma/R/ggplot2-tol.R |only khroma-1.1.0/khroma/R/ggplot2.R | 73 +++-------- khroma-1.1.0/khroma/R/khroma.R |only khroma-1.1.0/khroma/R/sysdata.rda |binary khroma-1.1.0/khroma/README.md | 21 ++- khroma-1.1.0/khroma/inst/CITATION | 20 --- khroma-1.1.0/khroma/inst/examples/ex-palettes.R |only khroma-1.1.0/khroma/inst/examples/ex-science-soil.R |only khroma-1.1.0/khroma/inst/examples/ex-science-stratigraphy.R |only khroma-1.1.0/khroma/inst/examples/ex-tol-discrete.R |only khroma-1.1.0/khroma/inst/examples/ex-tol-diverging.R |only khroma-1.1.0/khroma/inst/examples/ex-tol-sequential.R |only khroma-1.1.0/khroma/inst/examples/tol.R | 34 ++--- khroma-1.1.0/khroma/man/colour.Rd | 10 + khroma-1.1.0/khroma/man/figures/README-tol-diverging-1.png |binary khroma-1.1.0/khroma/man/figures/README-tol-qualitative-1.png |binary khroma-1.1.0/khroma/man/figures/README-tol-sequential-1.png |binary khroma-1.1.0/khroma/man/figures/logo.svg |only khroma-1.1.0/khroma/man/khroma-package.Rd |only khroma-1.1.0/khroma/man/scale_soil.Rd |only khroma-1.1.0/khroma/man/scale_stratigraphy.Rd | 8 - khroma-1.1.0/khroma/man/scale_tol.Rd | 49 +++---- khroma-1.1.0/khroma/man/scale_tol_discrete.Rd |only khroma-1.1.0/khroma/man/scale_tol_diverging.Rd |only khroma-1.1.0/khroma/man/scale_tol_sequential.Rd |only 32 files changed, 201 insertions(+), 166 deletions(-)
Title: Quickly Explore Your Data Using 'ggplot2' and 'table1' Summary
Tables
Description: Quickly and easily perform exploratory data analysis by uploading your
data as a 'csv' file. Start generating insights using 'ggplot2' plots and
'table1' tables with descriptive stats, all using an easy-to-use point and click
'Shiny' interface.
Author: Samer Mouksassi [aut, cre] (<https://orcid.org/0000-0002-7152-6654>),
Dean Attali [aut],
Benjamin Rich [aut] (provided summary stats tables tab code),
Michael Sachs [aut] (provided ggkm code)
Maintainer: Samer Mouksassi <samermouksassi@gmail.com>
Diff between ggquickeda versions 0.1.1 dated 2018-09-27 and 0.1.2 dated 2019-02-24
DESCRIPTION | 15 MD5 | 67 - NEWS.md | 26 README.md | 10 build/vignette.rds |binary inst/doc/AdditionalPlotsStats.Rmd | 43 - inst/doc/AdditionalPlotsStats.html | 241 ------ inst/doc/ggquickeda.Rmd | 4 inst/doc/ggquickeda.html | 202 ----- inst/shinyapp/global.R | 8 inst/shinyapp/server.R | 1306 +++++++++++++++++++++++++------------ inst/shinyapp/ui.R | 651 +++++++++++++----- man/geom_km.Rd | 45 - man/geom_kmband.Rd | 45 - man/geom_kmticks.Rd | 45 - man/stat_km.Rd | 35 man/stat_kmband.Rd | 35 man/stat_kmticks.Rd | 35 vignettes/AdditionalPlotsStats.Rmd | 43 - vignettes/ggquickeda.Rmd | 4 vignettes/intro_1.png |binary vignettes/intro_10.png |binary vignettes/intro_11.png |binary vignettes/intro_12.png |binary vignettes/intro_13.png |binary vignettes/intro_14.png |binary vignettes/intro_15.png |only vignettes/intro_2.png |binary vignettes/intro_3.png |binary vignettes/intro_4.png |binary vignettes/intro_5.png |binary vignettes/intro_6.png |binary vignettes/intro_7.png |binary vignettes/intro_8.png |binary vignettes/intro_9.png |binary 35 files changed, 1550 insertions(+), 1310 deletions(-)
Title: Dose Response Data Analysis using the 4 Parameter Logistic (4pl)
Model
Description: Models the relationship between dose levels and responses in a pharmacological experiment using the 4 Parameter Logistic model. Traditional packages on dose-response modelling such as 'drc' and 'nplr' often draw errors due to convergence failure especially when data have outliers or non-logistic shapes. This package provides robust estimation methods that are less affected by outliers and other initialization methods that work well for data lacking logistic shapes. We provide the bounds on the parameters of the 4PL model that prevent parameter estimates from diverging or converging to zero and base their justification in a statistical principle. These methods are used as remedies to convergence failure problems. Gadagkar, S. R. and Call, G. B. (2015) <doi:10.1016/j.vascn.2014.08.006> Ritz, C. and Baty, F. and Streibig, J. C. and Gerhard, D. (2015) <doi:10.1371/journal.pone.0146021>.
Author: Justin T. Landis [aut, cre],
Hyowon An [aut],
Aubrey G. Bailey [aut],
Dirk P. Dittmer [aut],
James S. Marron [aut]
Maintainer: Justin T. Landis <jtlandis314@gmail.com>
Diff between dr4pl versions 1.1.7.5 dated 2019-01-28 and 1.1.8 dated 2019-02-24
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 +++++- README.md | 2 +- build/partial.rdb |binary inst/doc/walk_through_in_R.html | 4 ++-- 6 files changed, 16 insertions(+), 12 deletions(-)
Title: Calibration Plot for Proteomics
Description: Functions to check whether a vector of p-values respects the assumptions of FDR (false discovery rate) control procedures and to compute adjusted p-values.
Author: Quentin Giai Gianetto, Florence Combes, Claire Ramus, Christophe Bruley, Yohann Couté, Thomas Burger
Maintainer: Quentin Giai Gianetto <quentin2g@yahoo.fr>
Diff between cp4p versions 0.3.5 dated 2016-05-11 and 0.3.6 dated 2019-02-24
cp4p-0.3.5/cp4p/data/datalist |only cp4p-0.3.6/cp4p/DESCRIPTION | 9 +++++---- cp4p-0.3.6/cp4p/MD5 | 6 ++---- cp4p-0.3.6/cp4p/NAMESPACE | 1 + 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Visualise Clusterings at Different Resolutions
Description: Deciding what resolution to use can be a difficult question when
approaching a clustering analysis. One way to approach this problem is to
look at how samples move as the number of clusters increases. This package
allows you to produce clustering trees, a visualisation for interrogating
clusterings as resolution increases.
Author: Luke Zappia [aut, cre] (<https://orcid.org/0000-0001-7744-8565>),
Alicia Oshlack [aut] (<https://orcid.org/0000-0001-9788-5690>),
Andrea Rau [ctb]
Maintainer: Luke Zappia <luke.zappia@mcri.edu.au>
Diff between clustree versions 0.2.2 dated 2018-07-10 and 0.3.0 dated 2019-02-24
DESCRIPTION | 13 - MD5 | 49 ++--- NAMESPACE | 3 NEWS.md | 195 +++++++++++++-------- R/clustree.R | 143 ++++++++++++++- R/clustree_overlay.R | 2 R/graph.R | 4 README.md | 52 +++-- build/vignette.rds |binary inst/CITATION | 17 + inst/WORDLIST |only inst/doc/clustree.R | 23 ++ inst/doc/clustree.Rmd | 78 ++++++-- inst/doc/clustree.html | 355 ++++++++++++++++++++++++--------------- man/add_node_labels.Rd |only man/assert_colour_node_aes.Rd | 6 man/assert_node_aes.Rd | 2 man/assert_numeric_node_aes.Rd | 2 man/check_node_aes_list.Rd |only man/clustree.Rd | 40 +++- man/clustree_overlay.Rd | 10 - man/overlay_node_points.Rd | 3 man/plot_overlay_side.Rd | 4 tests/spelling.R |only tests/testthat/test-aesthetics.R | 5 tests/testthat/test-clustree.R | 30 +++ vignettes/clustree.Rmd | 78 ++++++-- vignettes/references.bib |only 28 files changed, 771 insertions(+), 343 deletions(-)
Title: Bootstrap Algorithms for Finite Population Inference
Description: Finite Population bootstrap algorithms to estimate the variance
of the Horvitz-Thompson estimator for single-stage sampling.
For a survey of bootstrap methods for finite populations, see Mashreghi et Al. (2016) <doi:10.1214/16-SS113>.
Author: Roberto Sichera [aut, cre]
Maintainer: Roberto Sichera <roberto.sichera@unipa.it>
Diff between bootstrapFP versions 0.4.2 dated 2019-02-01 and 0.4.3 dated 2019-02-24
DESCRIPTION | 8 MD5 | 24 - R/AntalTille_UPS.R | 632 +++++++++++++++++++++------------------------- R/direct_SRS.R | 147 +++++----- R/generalised.R | 144 +++++----- R/pseudo_population.R | 306 +++++++++++----------- R/weights.R | 3 man/AntalTille2011_ups.Rd | 45 --- man/bootstrap_weights.Rd | 1 man/directBS_srs.Rd | 1 man/generalised.Rd | 1 man/ppBS_srs.Rd | 1 man/ppBS_ups.Rd | 1 13 files changed, 623 insertions(+), 691 deletions(-)
Title: Generation of Bivariate Uniform Data and Its Relation to
Bivariate Binary Data
Description: Simulation of bivariate uniform data with a full range of correlations based on two beta densities and computation of the tetrachoric correlation (correlation of bivariate uniform data) from the phi coefficient (correlation of bivariate binary data) and vice versa.
Author: Hakan Demirtas, Rawan Allozi, Ran Gao
Maintainer: Ran Gao <rgao8@uic.edu>
Diff between BivUnifBin versions 1.2 dated 2018-01-10 and 1.3 dated 2019-02-24
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ man/BivUnifBin-package.Rd | 8 ++++---- man/delta2rho.Rd | 2 +- man/genbivunif.a.Rd | 2 +- man/genbivunif.t.Rd | 2 +- man/rho2delta.Rd | 2 +- 7 files changed, 20 insertions(+), 20 deletions(-)
Title: Optimized Kernel Regularized Least Squares
Description: Functions for Kernel-Regularized Least Squares optimized for speed and memory usage are provided along with visualization tools. For working papers, sample code, and recent presentations visit <https://sites.google.com/site/petemohanty/software/>. bigKRLS, as well its dependencies, require current versions of R and its compilers (and RStudio if used). For details, see <https://github.com/rdrr1990/bigKRLS/blob/master/INSTALL.md>.
Author: Pete Mohanty [aut, cre] (<https://orcid.org/0000-0002-4985-5160>),
Robert Shaffer [aut] (<https://orcid.org/0000-0002-2081-2407>)
Maintainer: Pete Mohanty <pete.mohanty@gmail.com>
Diff between bigKRLS versions 3.0.0 dated 2018-04-04 and 3.0.2 dated 2019-02-24
DESCRIPTION | 16 ++- MD5 | 32 +++---- R/bigKRLS.R | 188 ++++++++++++++++++++++++++----------------- R/init.R | 3 build/vignette.rds |binary inst/doc/bigKRLS_basics.R | 2 inst/doc/bigKRLS_basics.Rmd | 61 ++++++++----- inst/doc/bigKRLS_basics.html | 122 ++++++++++++++------------- man/bigKRLS.Rd | 92 ++++++++++++--------- man/crossvalidate.bigKRLS.Rd | 19 ++-- man/load.bigKRLS.Rd | 4 man/predict.bigKRLS.Rd | 15 ++- man/save.bigKRLS.Rd | 7 - man/shiny.bigKRLS.Rd | 12 +- man/summary.bigKRLS.Rd | 18 ++-- man/summary.bigKRLS_CV.Rd | 14 ++- vignettes/bigKRLS_basics.Rmd | 61 ++++++++----- 17 files changed, 393 insertions(+), 273 deletions(-)
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