Title: Statistical Inference for Systems of Ordinary Differential
Equations using Separable Integral-Matching
Description: Implements statistical inference for systems of ordinary differential equations,
that uses the integral-matching criterion and takes advantage of the separability of parameters,
in order to obtain initial parameter estimates for nonlinear least squares optimization.
Dattner & Yaari (2018) <arXiv:1807.04202>.
Dattner et al. (2017) <doi:10.1098/rsif.2016.0525>.
Dattner & Klaassen (2015) <doi:10.1214/15-EJS1053>.
Author: Itai Dattner [aut],
Rami Yaari [aut, cre]
Maintainer: Rami Yaari <ramiyaari@gmail.com>
Diff between simode versions 1.1.0 dated 2018-10-04 and 1.1.1 dated 2018-10-05
DESCRIPTION | 6 +++--- MD5 | 4 ++-- demo/LVFEx2.R | 4 +--- 3 files changed, 6 insertions(+), 8 deletions(-)
Title: Map Filenames to MIME Types
Description: Guesses the MIME type from a filename extension using the data
derived from /etc/mime.types in UNIX-type systems.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Jeffrey Horner [ctb],
Beilei Bian [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between mime versions 0.5 dated 2016-07-07 and 0.6 dated 2018-10-05
DESCRIPTION | 24 ++++++++++++++---------- MD5 | 21 +++++++++++---------- NAMESPACE | 4 +++- NEWS | 6 ++++++ R/mime.R | 9 +++------ R/mimemap.R | 7 +++++++ R/parse.R | 2 +- README.md | 13 +++---------- man/guess_type.Rd | 1 + man/mimemap.Rd | 3 ++- man/parse_multipart.Rd | 1 + src/init.c |only 12 files changed, 52 insertions(+), 39 deletions(-)
Title: R Interface to 'Apache Tika'
Description: Extract text or metadata from over a thousand file types, using Apache Tika <https://tika.apache.org/>. Get either plain text or structured XHTML content.
Author: Sasha Goodman [aut, cre],
The Apache Software Foundation [aut, cph],
Julia Silge [rev] (Reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/191),
David Gohel [rev] (Reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/191)
Maintainer: Sasha Goodman <goodmansasha@gmail.com>
Diff between rtika versions 0.1.8 dated 2018-05-02 and 1.1.19 dated 2018-10-05
DESCRIPTION | 10 +++---- MD5 | 36 +++++++++++++------------- NAMESPACE | 1 NEWS.md | 12 ++++++++ R/install_tika.R | 18 ++++++++----- R/java.R |only R/rtika.R | 17 +++++------- R/tika.R | 29 ++++++++++++--------- R/tika_check.R | 24 ++++++++--------- R/zzz.R | 48 +++++++++++++++++++++++------------ README.md | 53 +++++++++++++++++++++++---------------- build/vignette.rds |binary inst/doc/rtika_introduction.Rmd | 4 +- inst/doc/rtika_introduction.html | 46 ++++++++++++++++----------------- man/install_tika.Rd | 12 +++++--- man/java.Rd |only man/rtika.Rd | 17 +++++------- man/tika.Rd | 10 +++---- man/tika_check.Rd | 14 ++++------ vignettes/rtika_introduction.Rmd | 4 +- 20 files changed, 199 insertions(+), 156 deletions(-)
Title: Utilities for Working with Air Quality Monitoring Data
Description: Utilities for working with air quality monitoring data
with a focus on small particulates (PM2.5) generated by wildfire
smoke. Functions are provided for downloading available data from
the United States 'EPA' <https://www.epa.gov/outdoor-air-quality-data> and
it's 'AirNow' air quality site <https://www.airnow.gov>.
Additional sources of PM2.5 data made accessible by the package include:
'AIRSIS' (password protected) <https://www.oceaneering.com/data-management/>
and 'WRCC' <https://wrcc.dri.edu/cgi-bin/smoke.pl>.
Data compilations are provided by 'PWFSL'
<https://www.fs.fed.us/pnw/pwfsl/>.
Author: Jonathan Callahan [aut, cre],
Rohan Aras [aut],
Zach Dingels [aut],
Jon Hagg [aut],
Jimin Kim [aut],
Helen Miller [aut],
Spencer Pease [aut],
Rex Thompson [aut],
Alice Yang [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between PWFSLSmoke versions 1.0.33 dated 2018-09-24 and 1.1.3 dated 2018-10-05
PWFSLSmoke-1.0.33/PWFSLSmoke/vignettes/Maps_and_Timeseries_Plots_files |only PWFSLSmoke-1.1.3/PWFSLSmoke/DESCRIPTION | 21 - PWFSLSmoke-1.1.3/PWFSLSmoke/MD5 | 77 +--- PWFSLSmoke-1.1.3/PWFSLSmoke/R/PWFSLSmoke.R | 42 +- PWFSLSmoke-1.1.3/PWFSLSmoke/R/addGoogleAddress.R | 18 PWFSLSmoke-1.1.3/PWFSLSmoke/R/addIcon.R | 36 - PWFSLSmoke-1.1.3/PWFSLSmoke/R/addMarker.R | 100 ++--- PWFSLSmoke-1.1.3/PWFSLSmoke/R/addMazamaMetadata.R | 28 - PWFSLSmoke-1.1.3/PWFSLSmoke/R/addUSGSElevation.R | 60 +-- PWFSLSmoke-1.1.3/PWFSLSmoke/R/airnow_downloadHourlyData.R | 18 PWFSLSmoke-1.1.3/PWFSLSmoke/R/airsis_parseData.R | 35 + PWFSLSmoke-1.1.3/PWFSLSmoke/R/aqiColors.R | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/R/distance.R | 18 PWFSLSmoke-1.1.3/PWFSLSmoke/R/esriMap_getMap.R | 58 +-- PWFSLSmoke-1.1.3/PWFSLSmoke/R/monitorEsriMap.R | 59 +-- PWFSLSmoke-1.1.3/PWFSLSmoke/R/monitorGoogleMap.R | 187 +++++----- PWFSLSmoke-1.1.3/PWFSLSmoke/R/monitorPlot_timeseries.R | 120 +++--- PWFSLSmoke-1.1.3/PWFSLSmoke/R/monitor_aqi.R | 34 - PWFSLSmoke-1.1.3/PWFSLSmoke/R/monitor_currentData.R | 88 ++-- PWFSLSmoke-1.1.3/PWFSLSmoke/R/monitor_performance.R | 50 +- PWFSLSmoke-1.1.3/PWFSLSmoke/R/raw_enhance.R | 7 PWFSLSmoke-1.1.3/PWFSLSmoke/R/skill_confusionMatrix.R | 58 +-- PWFSLSmoke-1.1.3/PWFSLSmoke/man/AQI.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/AQI_en.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/AQI_es.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/Northwest_Megafires.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/WRCC.Rd | 4 PWFSLSmoke-1.1.3/PWFSLSmoke/man/addGoogleAddress.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/addIcon.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/addMarker.Rd | 4 PWFSLSmoke-1.1.3/PWFSLSmoke/man/airsis_parseData.Rd | 1 PWFSLSmoke-1.1.3/PWFSLSmoke/man/aqiColors.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/esriMap_getMap.Rd | 4 PWFSLSmoke-1.1.3/PWFSLSmoke/man/monitorEsriMap.Rd | 17 PWFSLSmoke-1.1.3/PWFSLSmoke/man/monitor_aqi.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/monitor_currentData.Rd | 6 PWFSLSmoke-1.1.3/PWFSLSmoke/man/monitor_performance.Rd | 2 PWFSLSmoke-1.1.3/PWFSLSmoke/man/raw_enhance.Rd | 1 PWFSLSmoke-1.1.3/PWFSLSmoke/man/skill_confusionMatrix.Rd | 2 39 files changed, 608 insertions(+), 565 deletions(-)
Title: Estimation Methods for Stochastic Differential Mixed Effects
Models
Description: Inference on stochastic differential models Ornstein-Uhlenbeck or
Cox-Ingersoll-Ross, with one or two random effects in the drift function.
Author: Charlotte Dion [aut, cre],
Adeline Sansom [aut], Simone Hermann [aut]
Maintainer: Charlotte Dion <charlotte.dion@upmc.fr>
Diff between mixedsde versions 4.0 dated 2018-03-19 and 5.0 dated 2018-10-05
mixedsde-4.0/mixedsde/man/mixedsde-package.Rd |only mixedsde-5.0/mixedsde/DESCRIPTION | 17 ++---- mixedsde-5.0/mixedsde/MD5 | 19 +++---- mixedsde-5.0/mixedsde/R/EstParamNormal.R | 2 mixedsde-5.0/mixedsde/README.md | 1 mixedsde-5.0/mixedsde/man/EstParamNormal.Rd | 2 mixedsde-5.0/mixedsde/man/mixedsde.sim.Rd | 6 +- mixedsde-5.0/mixedsde/man/neuronal.data.Rd | 40 ++++++---------- mixedsde-5.0/mixedsde/man/plot-Bayes.fit-ANY-method.Rd | 6 +- mixedsde-5.0/mixedsde/man/plot-Bayes.pred-ANY-method.Rd | 5 +- mixedsde-5.0/mixedsde/man/pred-Bayes.fit-method.Rd | 6 +- 11 files changed, 46 insertions(+), 58 deletions(-)
Title: Simulate and Sample from Ecological Interaction Networks
Description: Randomly generate a wide range of interaction networks with
specified size, average degree, modularity, and topological
structure. Sample nodes and links from within simulated networks
randomly, by degree, by module, or by abundance. Simulations
and sampling routines are implemented in 'FORTRAN', providing
efficient generation times even for large networks. Basic
visualization methods also included. Algorithms implemented
here are described in de Aguiar et al. (2017) <arXiv:1708.01242>.
Author: Marcus de Aguiar [aut, cph] (<https://orcid.org/0000-0003-1379-7568>),
Erica Newman [aut] (<https://orcid.org/0000-0001-6433-8594>),
Mathias Pires [aut] (<https://orcid.org/0000-0003-2500-4748>),
NIMBioS [fnd],
Carl Boettiger [aut, cre] (<https://orcid.org/0000-0003-4580-091X>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between EcoNetGen versions 0.2.1 dated 2018-08-11 and 0.2.2 dated 2018-10-05
DESCRIPTION | 8 +-- MD5 | 27 +++++----- NEWS.md | 12 ++++ R/NetGen.R | 75 +++++++++++++++++++++++++++--- inst/WORDLIST | 2 inst/crash.R |only man/figures/README-adj_plot-1.png |binary man/figures/README-igraph_plot-1.png |binary man/figures/README-members-1.png |binary man/figures/README-sampled_adj-1.png |binary man/figures/README-sampled_hairball-1.png |binary man/figures/README-subgraph-1.png |binary man/netgen.Rd | 34 +++++++++---- man/netgen_v1.Rd | 4 - tests/testthat/test-netgen.R | 22 ++++++++ 15 files changed, 146 insertions(+), 38 deletions(-)
Title: Dynamic Model Averaging
Description: Dynamic model averaging for binary and continuous
outcomes.
Author: Tyler H. McCormick, Adrian Raftery, David Madigan, Sevvandi Kandanaarachchi [ctb], Hana Sevcikova [ctb]
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between dma versions 1.3-1 dated 2018-03-10 and 1.4-0 dated 2018-10-05
ChangeLog | 5 DESCRIPTION | 13 - MD5 | 20 +- NAMESPACE | 8 R/dlogr.init.R | 11 + R/dlogr.step.R | 2 R/laplace.fn.R | 26 ++- R/logistic.dma.default.R | 387 +++++++++++++++++++++++++++++++---------------- man/dma-package.Rd | 6 man/logistic.dma.Rd | 91 +++++++---- tests |only 11 files changed, 384 insertions(+), 185 deletions(-)
Title: R to Symbolic Data Analysis
Description: Symbolic Data Analysis (SDA) was proposed by professor Edwin Diday in 1987, the main purpose of SDA is to substitute the set of rows (cases) in the data table for a concept (second order statistical unit). This package implements, to the symbolic case, certain techniques of automatic classification, as well as some linear models.
Author: Oldemar Rodriguez R. with contributions from Carlos Aguero, Olger Calderon, Roberto Zuniga and Jorge Arce
Maintainer: Oldemar Rodriguez <oldemar.rodriguez@ucr.ac.cr>
Diff between RSDA versions 2.0.5 dated 2018-07-30 and 2.0.7 dated 2018-10-05
RSDA-2.0.5/RSDA/R/cfa.minmax.R |only RSDA-2.0.5/RSDA/tests |only RSDA-2.0.7/RSDA/DESCRIPTION | 8 RSDA-2.0.7/RSDA/MD5 | 300 +++--- RSDA-2.0.7/RSDA/NAMESPACE | 3 RSDA-2.0.7/RSDA/R/R2.L.R | 6 RSDA-2.0.7/RSDA/R/R2.U.R | 6 RSDA-2.0.7/RSDA/R/RMSE.L.R | 12 RSDA-2.0.7/RSDA/R/RMSE.U.R | 12 RSDA-2.0.7/RSDA/R/RSDA.R | 12 RSDA-2.0.7/RSDA/R/RSDA.to.latex.j.r | 4 RSDA-2.0.7/RSDA/R/SDS.to.RSDA.R | 485 ++++++----- RSDA-2.0.7/RSDA/R/SODAS.to.RSDA.R | 161 ++- RSDA-2.0.7/RSDA/R/calc.burt.sym.2.r |only RSDA-2.0.7/RSDA/R/calc.burt.sym.r |only RSDA-2.0.7/RSDA/R/calc.k.r |only RSDA-2.0.7/RSDA/R/calc.matrix.min.r |only RSDA-2.0.7/RSDA/R/calculate.probs.R | 15 RSDA-2.0.7/RSDA/R/centers.interval.R | 36 RSDA-2.0.7/RSDA/R/centers.interval.j.r | 54 - RSDA-2.0.7/RSDA/R/centers.interval2.r |only RSDA-2.0.7/RSDA/R/cfa.CVPRealz.R | 46 - RSDA-2.0.7/RSDA/R/cfa.Czz.R | 68 - RSDA-2.0.7/RSDA/R/cfa.MatrixZ.R | 72 - RSDA-2.0.7/RSDA/R/cfa.minmax.r |only RSDA-2.0.7/RSDA/R/cfa.scatterplot.R | 98 +- RSDA-2.0.7/RSDA/R/cfa.scatterplot.gg.R |only RSDA-2.0.7/RSDA/R/cfa.totals.R | 100 +- RSDA-2.0.7/RSDA/R/change.coord.j.r | 32 RSDA-2.0.7/RSDA/R/classic.to.sym.R | 206 ++-- RSDA-2.0.7/RSDA/R/cor.sym.data.table.R | 40 RSDA-2.0.7/RSDA/R/cov.sym.data.table.R | 71 - RSDA-2.0.7/RSDA/R/data.R | 14 RSDA-2.0.7/RSDA/R/data.frame.to.RSDA.interval.table.r |only RSDA-2.0.7/RSDA/R/data.frame.to.RSDA.inteval.table.j.r | 70 - RSDA-2.0.7/RSDA/R/data.frame.to.sym.inteval.j.r | 70 - RSDA-2.0.7/RSDA/R/desv.fun.j.r | 4 RSDA-2.0.7/RSDA/R/deter.coefficient.R | 18 RSDA-2.0.7/RSDA/R/display.sym.table.R | 2 RSDA-2.0.7/RSDA/R/dist.R | 118 +- RSDA-2.0.7/RSDA/R/dist.interval.R | 312 +++---- RSDA-2.0.7/RSDA/R/dist.modal.R | 28 RSDA-2.0.7/RSDA/R/dist.set.R | 173 ++- RSDA-2.0.7/RSDA/R/dist.vect.R | 10 RSDA-2.0.7/RSDA/R/dist.vect.matrix.R | 20 RSDA-2.0.7/RSDA/R/downarrow.matrix.R | 160 +-- RSDA-2.0.7/RSDA/R/generate.columns.interval.j.r | 11 RSDA-2.0.7/RSDA/R/generate.columns.multivalued.j.r | 19 RSDA-2.0.7/RSDA/R/generate.columns.set.j.r | 14 RSDA-2.0.7/RSDA/R/generate.sym.table.R | 74 - RSDA-2.0.7/RSDA/R/get.rotation.matrix.j.r | 8 RSDA-2.0.7/RSDA/R/interscal.B.R | 48 - RSDA-2.0.7/RSDA/R/interscal.R | 89 +- RSDA-2.0.7/RSDA/R/interscal.delta.R | 60 - RSDA-2.0.7/RSDA/R/interval.dist.R | 64 - RSDA-2.0.7/RSDA/R/interval.dist.tobj.R | 113 +- RSDA-2.0.7/RSDA/R/interval.histogram.plot.R | 100 +- RSDA-2.0.7/RSDA/R/is.vertex.j.r | 30 RSDA-2.0.7/RSDA/R/mean.sym.data.table.R | 38 RSDA-2.0.7/RSDA/R/median.sym.data.table.R | 40 RSDA-2.0.7/RSDA/R/meta.to.RSDA.j.r | 130 +- RSDA-2.0.7/RSDA/R/neg.desv.fun.j.r | 4 RSDA-2.0.7/RSDA/R/neighbors.vertex.R | 8 RSDA-2.0.7/RSDA/R/newSobject.R | 60 - RSDA-2.0.7/RSDA/R/norm.vect.R | 4 RSDA-2.0.7/RSDA/R/optim.desv.fun.interval.j.r | 40 RSDA-2.0.7/RSDA/R/optim.pca.distance.j.r | 82 - RSDA-2.0.7/RSDA/R/optim.pca.variance.j.r | 80 - RSDA-2.0.7/RSDA/R/pca.supplementary.vertex.fun.j.r | 40 RSDA-2.0.7/RSDA/R/pca.supplementary.vertex.lambda.fun.j.r | 48 - RSDA-2.0.7/RSDA/R/plot.sym.data.table.R | 66 - RSDA-2.0.7/RSDA/R/plotX.slice.R | 98 +- RSDA-2.0.7/RSDA/R/predictsym.glm.R | 75 - RSDA-2.0.7/RSDA/R/predictsym.lm.R | 89 +- RSDA-2.0.7/RSDA/R/principal.axis.i.j.r | 12 RSDA-2.0.7/RSDA/R/process.continue.variable.R | 31 RSDA-2.0.7/RSDA/R/process.continuum.variable.R | 10 RSDA-2.0.7/RSDA/R/process.histogram.variable.R | 15 RSDA-2.0.7/RSDA/R/process.inter.cont.variable.R | 39 RSDA-2.0.7/RSDA/R/process.interval.variable.R | 10 RSDA-2.0.7/RSDA/R/process.modal.variable.R | 75 - RSDA-2.0.7/RSDA/R/process.mult.nominal.modif.variable.R | 78 + RSDA-2.0.7/RSDA/R/process.mult.nominal.variable.R | 66 - RSDA-2.0.7/RSDA/R/process.nominal.variable.R | 58 - RSDA-2.0.7/RSDA/R/process.set.variable.R | 59 - RSDA-2.0.7/RSDA/R/read.sym.table.R | 139 +-- RSDA-2.0.7/RSDA/R/rightarrow.matrix.R | 2 RSDA-2.0.7/RSDA/R/scatter.sym.j.r | 86 + RSDA-2.0.7/RSDA/R/sd.sym.data.table.R | 59 - RSDA-2.0.7/RSDA/R/sym.cfa.R | 165 +-- RSDA-2.0.7/RSDA/R/sym.circle.plot.R | 86 - RSDA-2.0.7/RSDA/R/sym.continuos.plot.R | 20 RSDA-2.0.7/RSDA/R/sym.cor.R | 40 RSDA-2.0.7/RSDA/R/sym.cov.R | 81 + RSDA-2.0.7/RSDA/R/sym.data.table.to.sym.var.R | 18 RSDA-2.0.7/RSDA/R/sym.glm.R | 75 - RSDA-2.0.7/RSDA/R/sym.hclust.R | 12 RSDA-2.0.7/RSDA/R/sym.hist.plot.R | 22 RSDA-2.0.7/RSDA/R/sym.histogram.pca.R | 62 - RSDA-2.0.7/RSDA/R/sym.interval.pc.2.j.r | 145 +-- RSDA-2.0.7/RSDA/R/sym.interval.pc.R | 155 +-- RSDA-2.0.7/RSDA/R/sym.interval.pc.limits.2.j.r | 48 - RSDA-2.0.7/RSDA/R/sym.interval.pc.limits.R | 60 - RSDA-2.0.7/RSDA/R/sym.interval.pca.R | 289 +++--- RSDA-2.0.7/RSDA/R/sym.interval.pca.limits.new.j.r | 44 RSDA-2.0.7/RSDA/R/sym.interval.plot.R | 32 RSDA-2.0.7/RSDA/R/sym.interval.vertex.pca.j.r | 150 +-- RSDA-2.0.7/RSDA/R/sym.kmeans.R | 35 RSDA-2.0.7/RSDA/R/sym.lm.R | 71 - RSDA-2.0.7/RSDA/R/sym.lm.bi.R | 94 +- RSDA-2.0.7/RSDA/R/sym.mcfa.r |only RSDA-2.0.7/RSDA/R/sym.mds.R | 15 RSDA-2.0.7/RSDA/R/sym.mean.R | 38 RSDA-2.0.7/RSDA/R/sym.median.R | 42 RSDA-2.0.7/RSDA/R/sym.modal.plot.R | 40 RSDA-2.0.7/RSDA/R/sym.normalize.R | 32 RSDA-2.0.7/RSDA/R/sym.obj.R | 14 RSDA-2.0.7/RSDA/R/sym.radar.plot.R | 96 +- RSDA-2.0.7/RSDA/R/sym.scale.interval.j.r | 14 RSDA-2.0.7/RSDA/R/sym.scatterplot.R | 87 + RSDA-2.0.7/RSDA/R/sym.scatterplot.ggplot.R | 67 - RSDA-2.0.7/RSDA/R/sym.scatterplot3d.R | 139 +-- RSDA-2.0.7/RSDA/R/sym.sd.R | 55 - RSDA-2.0.7/RSDA/R/sym.set.plot.R | 42 RSDA-2.0.7/RSDA/R/sym.table.to.latex.j.r | 4 RSDA-2.0.7/RSDA/R/sym.var.R | 19 RSDA-2.0.7/RSDA/R/sym.variance.R | 57 - RSDA-2.0.7/RSDA/R/transpose.sym.r |only RSDA-2.0.7/RSDA/R/var.sym.data.table.R | 69 - RSDA-2.0.7/RSDA/R/variance.princ.curve.R | 18 RSDA-2.0.7/RSDA/R/vertex.interval.R | 62 - RSDA-2.0.7/RSDA/R/vertex.interval.new.j.r | 66 - RSDA-2.0.7/RSDA/R/vertex.pca.j.r | 48 - RSDA-2.0.7/RSDA/R/whiskers.j.r | 4 RSDA-2.0.7/RSDA/R/write.sym.table.R | 8 RSDA-2.0.7/RSDA/man/RSDA.Rd | 4 RSDA-2.0.7/RSDA/man/RSDA.to.latex.Rd |only RSDA-2.0.7/RSDA/man/calc.burt.sym.Rd |only RSDA-2.0.7/RSDA/man/centers.interval.j.Rd |only RSDA-2.0.7/RSDA/man/cfa.minmax.Rd | 2 RSDA-2.0.7/RSDA/man/cfa.minmax.new.Rd |only RSDA-2.0.7/RSDA/man/cfa.scatterplot.Rd | 6 RSDA-2.0.7/RSDA/man/cfa.scatterplot.gg.Rd |only RSDA-2.0.7/RSDA/man/change.coord.Rd |only RSDA-2.0.7/RSDA/man/data.fame.to.sym.inteval.Rd |only RSDA-2.0.7/RSDA/man/data.frame.to.RSDA.inteval.table.j.Rd |only RSDA-2.0.7/RSDA/man/ex_cfa1.Rd | 7 RSDA-2.0.7/RSDA/man/ex_cfa2.Rd | 7 RSDA-2.0.7/RSDA/man/generate.columns.interval.Rd |only RSDA-2.0.7/RSDA/man/generate.columns.multivalued.Rd |only RSDA-2.0.7/RSDA/man/generate.columns.set.Rd |only RSDA-2.0.7/RSDA/man/get.rotation.matrix.Rd |only RSDA-2.0.7/RSDA/man/is.vertex.Rd |only RSDA-2.0.7/RSDA/man/meta.to.RSDA.Rd |only RSDA-2.0.7/RSDA/man/neg.desv.fun.Rd |only RSDA-2.0.7/RSDA/man/optim.desv.fun.interval.Rd |only RSDA-2.0.7/RSDA/man/optim.pca.distance.j.Rd |only RSDA-2.0.7/RSDA/man/optim.pca.variance.j.Rd |only RSDA-2.0.7/RSDA/man/pca.supplementary.vertex.lambda.fun.j.Rd |only RSDA-2.0.7/RSDA/man/principal.axis.i.Rd |only RSDA-2.0.7/RSDA/man/sym.cfa.Rd | 13 RSDA-2.0.7/RSDA/man/sym.interval.pc.2.j.Rd |only RSDA-2.0.7/RSDA/man/sym.interval.pc.limits.2.j.Rd |only RSDA-2.0.7/RSDA/man/sym.interval.pca.limits.new.j.Rd |only RSDA-2.0.7/RSDA/man/sym.interval.vertex.pca.j.Rd |only RSDA-2.0.7/RSDA/man/sym.mcfa.Rd |only RSDA-2.0.7/RSDA/man/sym.scatterplot.Rd | 10 RSDA-2.0.7/RSDA/man/sym.table.latex.Rd |only RSDA-2.0.7/RSDA/man/vertex.interval.new.j.Rd |only RSDA-2.0.7/RSDA/man/vertex.pca.j.Rd |only RSDA-2.0.7/RSDA/man/whiskers.Rd |only 171 files changed, 4265 insertions(+), 3641 deletions(-)
Title: Statistical Modelling of Extreme Values
Description: Statistical extreme value modelling of threshold excesses, maxima
and multivariate extremes. Univariate models for threshold excesses and maxima
are the Generalised Pareto, and Generalised Extreme Value model respectively.
These models may be fitted by using maximum (optionally penalised-)likelihood,
or Bayesian estimation, and both classes of models may be fitted with covariates
in any/all model parameters. Model diagnostics support the fitting process.
Graphical output for visualising fitted models and return level estimates is
provided. For serially dependent sequences, the intervals declustering algorithm
of Ferro and Segers (2003) <doi:10.1111/1467-9868.00401> is provided, with
diagnostic support to aid selection of threshold and declustering horizon.
Multivariate modelling is performed via the conditional approach of Heffernan
and Tawn (2004) <doi:10.1111/j.1467-9868.2004.02050.x>, with graphical tools for
threshold selection and to diagnose estimation convergence.
Author: Harry Southworth [aut, cre],
Janet E. Heffernan [aut],
Paul D. Metcalfe [aut],
Yiannis Papastathopoulos [ctb],
Alec Stephenson [ctb],
Stuart Coles [ctb]
Maintainer: Harry Southworth <harry.southworth@gmail.com>
Diff between texmex versions 2.4 dated 2017-11-16 and 2.4.2 dated 2018-10-05
texmex-2.4.2/texmex/CHANGES | 27 + texmex-2.4.2/texmex/DESCRIPTION | 94 ++--- texmex-2.4.2/texmex/MD5 | 161 +++++--- texmex-2.4.2/texmex/NAMESPACE | 9 texmex-2.4.2/texmex/R/AIC.evm.R | 6 texmex-2.4.2/texmex/R/RcppExports.R |only texmex-2.4.2/texmex/R/bootmex.R | 13 texmex-2.4.2/texmex/R/cgpd.R |only texmex-2.4.2/texmex/R/chi.R | 28 - texmex-2.4.2/texmex/R/coefficients.migpd.R | 4 texmex-2.4.2/texmex/R/copulas.R | 74 ++-- texmex-2.4.2/texmex/R/dgpd.R | 20 - texmex-2.4.2/texmex/R/egp3RangeFit.R | 4 texmex-2.4.2/texmex/R/evm.R | 36 +- texmex-2.4.2/texmex/R/ggplot.evm.R | 4 texmex-2.4.2/texmex/R/ggplot.mex.R | 23 + texmex-2.4.2/texmex/R/ggplot.thresh.R | 2 texmex-2.4.2/texmex/R/gpdProfileLikRetLevels.R |only texmex-2.4.2/texmex/R/jointExceedanceCurves.R | 1 texmex-2.4.2/texmex/R/mexDependence.R | 179 +++++----- texmex-2.4.2/texmex/R/mexRangeFit.R | 21 - texmex-2.4.2/texmex/R/mexTransform.R | 129 ++++--- texmex-2.4.2/texmex/R/mspearman.R | 14 texmex-2.4.2/texmex/R/plot.mexPrediction.R | 12 texmex-2.4.2/texmex/R/predict.evm.R | 2 texmex-2.4.2/texmex/R/predict.mex.R | 22 - texmex-2.4.2/texmex/R/print.mexPrediction.R | 2 texmex-2.4.2/texmex/R/residuals.evm.R | 4 texmex-2.4.2/texmex/R/revTransform.R | 6 texmex-2.4.2/texmex/R/summary.evm.R | 138 +++---- texmex-2.4.2/texmex/R/summary.predict.mex.R | 2 texmex-2.4.2/texmex/R/texmex-package.R | 3 texmex-2.4.2/texmex/R/texmexFamily.R | 73 ++-- texmex-2.4.2/texmex/README.md | 17 texmex-2.4.2/texmex/inst/doc/egp3.pdf |binary texmex-2.4.2/texmex/man/AIC.evmOpt.Rd | 3 texmex-2.4.2/texmex/man/JointExceedanceCurve.Rd | 72 ++-- texmex-2.4.2/texmex/man/MCS.Rd | 23 - texmex-2.4.2/texmex/man/bootmex.Rd | 18 - texmex-2.4.2/texmex/man/copula.Rd | 34 + texmex-2.4.2/texmex/man/degp3.Rd | 3 texmex-2.4.2/texmex/man/dot-exprel.Rd |only texmex-2.4.2/texmex/man/dot-log1mexp.Rd |only texmex-2.4.2/texmex/man/dot-log1prel.Rd |only texmex-2.4.2/texmex/man/dot-specfun.safe.product.Rd |only texmex-2.4.2/texmex/man/evm.Rd | 60 ++- texmex-2.4.2/texmex/man/evmSim.Rd | 4 texmex-2.4.2/texmex/man/evmSimSetSeed.Rd | 11 texmex-2.4.2/texmex/man/ggplot.evmOpt.Rd | 15 texmex-2.4.2/texmex/man/ggplot.rl.evmOpt.Rd | 4 texmex-2.4.2/texmex/man/gpd.prof.Rd |only texmex-2.4.2/texmex/man/makeReferenceMarginalDistribution.Rd |only texmex-2.4.2/texmex/man/mex.Rd | 22 - texmex-2.4.2/texmex/man/mexDependence.Rd | 173 +++++---- texmex-2.4.2/texmex/man/mexMonteCarlo.Rd | 10 texmex-2.4.2/texmex/man/mexRangeFit.Rd | 15 texmex-2.4.2/texmex/man/migpd.Rd | 9 texmex-2.4.2/texmex/man/plot.copula.Rd |only texmex-2.4.2/texmex/man/predict.evmOpt.Rd | 40 +- texmex-2.4.2/texmex/man/rl.Rd | 25 - texmex-2.4.2/texmex/man/simulate.evmOpt.Rd | 4 texmex-2.4.2/texmex/man/texmex-package.Rd | 32 - texmex-2.4.2/texmex/man/texmexFamily.Rd | 77 ++-- texmex-2.4.2/texmex/src/RcppExports.cpp |only texmex-2.4.2/texmex/src/exponentiate.h |only texmex-2.4.2/texmex/src/gpd.cpp |only texmex-2.4.2/texmex/src/mapply.h |only texmex-2.4.2/texmex/src/mapply_4.h |only texmex-2.4.2/texmex/src/special_functions.cpp |only texmex-2.4.2/texmex/src/special_functions.h |only texmex-2.4.2/texmex/tests/testthat/test-MCS.R | 81 ++-- texmex-2.4.2/texmex/tests/testthat/test-cgpd.R |only texmex-2.4.2/texmex/tests/testthat/test-chi.R | 17 texmex-2.4.2/texmex/tests/testthat/test-copula.R | 50 +- texmex-2.4.2/texmex/tests/testthat/test-dgpd.R | 17 texmex-2.4.2/texmex/tests/testthat/test-egp3.R | 1 texmex-2.4.2/texmex/tests/testthat/test-evm.R | 1 texmex-2.4.2/texmex/tests/testthat/test-exprel.R | 5 texmex-2.4.2/texmex/tests/testthat/test-gpd.prof.R |only texmex-2.4.2/texmex/tests/testthat/test-gumbel.R | 1 texmex-2.4.2/texmex/tests/testthat/test-log1mexp.R |only texmex-2.4.2/texmex/tests/testthat/test-log1prel.R | 6 texmex-2.4.2/texmex/tests/testthat/test-makeReferenceMarginalDistribution.R |only texmex-2.4.2/texmex/tests/testthat/test-migpd.R | 14 texmex-2.4.2/texmex/tests/testthat/test-migpdCoefs.R | 13 texmex-2.4.2/texmex/tests/testthat/test-pgev.R | 36 -- texmex-2.4.2/texmex/tests/testthat/test-pgpd.R | 22 - texmex-2.4.2/texmex/tests/testthat/test-plot.bootmex.R | 2 texmex-2.4.2/texmex/tests/testthat/test-qgev.R | 79 ++-- texmex-2.4.2/texmex/tests/testthat/test-qgpd.R | 16 texmex-2.4.2/texmex/tests/testthat/test-revTransform.R | 43 +- texmex-2.4/texmex/R/special.functions.R |only texmex-2.4/texmex/src/texmex.c |only 93 files changed, 1218 insertions(+), 970 deletions(-)
Title: jsTree Bindings for Shiny
Description: Exposes bindings to jsTree -- a JavaScript library
that supports interactive trees -- to enable a rich, editable trees in
Shiny.
Author: Trestle Technology, LLC [aut],
Jeff Allen [aut],
Institut de Radioprotection et de Sûreté Nucléaire [cph],
Ivan Bozhanov [ctb, cph] (jsTree),
The Dojo Foundation [ctb, cph] (require.js),
jQuery Foundation, Inc. [ctb, cph],
Mike Schaffer [cre],
Timm Danker [ctb],
Michael Bell [ctb]
Maintainer: Mike Schaffer <mschaff@gmail.com>
Diff between shinyTree versions 0.2.2 dated 2015-02-13 and 0.2.6 dated 2018-10-05
shinyTree-0.2.2/shinyTree/inst/www/jsTree-3.0.2 |only shinyTree-0.2.6/shinyTree/DESCRIPTION | 35 +++--- shinyTree-0.2.6/shinyTree/LICENSE | 2 shinyTree-0.2.6/shinyTree/MD5 | 85 +++++++++++---- shinyTree-0.2.6/shinyTree/NAMESPACE | 7 + shinyTree-0.2.6/shinyTree/NEWS | 5 shinyTree-0.2.6/shinyTree/R/get-selected.R | 32 +++++ shinyTree-0.2.6/shinyTree/R/init.R | 21 +++ shinyTree-0.2.6/shinyTree/R/list-to-tags.R | 33 +++++ shinyTree-0.2.6/shinyTree/R/render-tree.R | 14 ++ shinyTree-0.2.6/shinyTree/R/shiny-tree.R | 43 +++++-- shinyTree-0.2.6/shinyTree/R/update-tree.R |only shinyTree-0.2.6/shinyTree/README.md | 48 +++++++- shinyTree-0.2.6/shinyTree/inst/examples/09-themes |only shinyTree-0.2.6/shinyTree/inst/examples/10-node-ids |only shinyTree-0.2.6/shinyTree/inst/examples/11-tree-update |only shinyTree-0.2.6/shinyTree/inst/examples/12-types |only shinyTree-0.2.6/shinyTree/inst/www/jsTree-3.3.3 |only shinyTree-0.2.6/shinyTree/inst/www/shinyTree.js | 94 ++++++++++++----- shinyTree-0.2.6/shinyTree/man/get_selected.Rd | 19 +-- shinyTree-0.2.6/shinyTree/man/renderEmptyTree.Rd |only shinyTree-0.2.6/shinyTree/man/renderTree.Rd | 18 +-- shinyTree-0.2.6/shinyTree/man/shinyTree.Rd | 39 +++---- shinyTree-0.2.6/shinyTree/man/updateTree.Rd |only shinyTree-0.2.6/shinyTree/tests/test-all.R | 2 25 files changed, 368 insertions(+), 129 deletions(-)
Title: Polyhedra Database
Description: A polyhedra database scraped from various sources as R6 objects and 'rgl' visualizing capabilities.
Author: Alejandro Baranek [aut, com, cre, cph],
Leonardo Belen [aut, com, cph]
Maintainer: Alejandro Baranek <abaranek@dc.uba.ar>
Diff between Rpolyhedra versions 0.2.7 dated 2018-10-02 and 0.2.8 dated 2018-10-05
Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra.0.2.6.RDS |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/7041d885.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/71414d10.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/72660f09.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/7e401e13.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/8d186825.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/a228eaed.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/db1fa66c.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/e3bc1de9.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/dmccooey/f527e7d9.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/02d2e71a.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/044ce97b.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/04d0c974.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/04eeed81.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/069bb8be.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/10c62fd3.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/14c83ce8.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/16064726.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/1b5f7c1a.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/1b8d4601.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/1c9900bf.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/21e798b4.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/2218c390.RDS.zip |only Rpolyhedra-0.2.7/Rpolyhedra/inst/extdata/polyhedra/netlib/24a1946f.RDS.zip |only 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Title: Extended Structural Equation Modelling
Description: Facilitates treatment of statistical model specifications
as things that can be generated and manipulated programmatically.
Structural equation models may be specified with reticular action model matrices or paths,
linear structural relations matrices or paths, or
directly in matrix algebra.
Fit functions include full information maximum likelihood,
maximum likelihood, and weighted least squares.
Example models include confirmatory factor, multiple group, mixture
distribution, categorical threshold, modern test theory, differential
equations, state space, and many others. MacOS users can download the most up-to-date
package binaries from <http://openmx.ssri.psu.edu>.
See Neale, Hunter, Pritikin, Zahery, Brick,
Kirkpatrick, Estabrook, Bates, Maes, & Boker (2016) <doi:10.1007/s11336-014-9435-8>.
Author: Steven M. Boker [aut],
Michael C. Neale [aut],
Hermine H. Maes [aut],
Michael J. Wilde [ctb],
Michael Spiegel [aut],
Timothy R. Brick [aut],
Ryne Estabrook [aut],
Timothy C. Bates [aut],
Paras Mehta [ctb],
Timo von Oertzen [ctb],
Ross J. Gore [aut],
Michael D. Hunter [aut],
Daniel C. Hackett [ctb],
Julian Karch [ctb],
Andreas M. Brandmaier [ctb],
Joshua N. Pritikin [aut, cre],
Mahsa Zahery [aut],
Robert M. Kirkpatrick [aut],
Yang Wang [ctb],
Charles Driver [ctb],
Massachusetts Institute of Technology [cph],
S. G. Johnson [cph],
Association for Computing Machinery [cph],
Dieter Kraft [cph],
Stefan Wilhelm [cph],
Sarah Medland [cph],
Carl F. Falk [cph],
Matt Keller [cph],
Manjunath B G [cph],
The Regents of the University of California [cph],
Lester Ingber [cph],
Wong Shao Voon [cph]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between OpenMx versions 2.11.4 dated 2018-09-25 and 2.11.5 dated 2018-10-05
DESCRIPTION | 8 MD5 | 79 +++--- NEWS | 22 + NEWS.md |only R/MxCompute.R | 35 ++ R/MxExpectationNormal.R | 2 R/MxExpectationRAM.R | 8 R/MxRename.R | 1 R/MxRun.R | 18 - R/MxSummary.R | 3 R/MxVersion.R | 2 configure | 10 inst/CITATION | 2 inst/models/nightly/ContinuousTime.R | 10 inst/models/nightly/GREML_monophenotype_1GRM.R | 4 inst/models/nightly/GREML_monophenotype_1GRM_GradDesc.R | 2 inst/models/nightly/ifa-bifactor.R | 2 inst/models/nightly/multilevelLatentRegression2.R | 23 + inst/models/passing/Rampart0.R | 1 inst/models/passing/RenameAndSummary.R | 3 inst/models/passing/tangleF.R | 1 inst/models/passing/xxm-1.R | 8 man/MxMMI.Rd | 1 man/mxComputeNelderMead.Rd | 2 man/mxComputeStandardError.Rd | 10 man/mxStandardizeRAMpaths.Rd | 1 src/Compute.cpp | 197 +++++++++++++++- src/Makevars.in | 2 src/RAMInternal.h | 18 + src/fitMultigroup.cpp | 9 src/omxData.cpp | 143 +++++++++-- src/omxData.h | 4 src/omxDefines.h | 23 + src/omxExpectation.cpp | 49 ++- src/omxExpectation.h | 4 src/omxFitFunction.cpp | 4 src/omxFitFunction.h | 2 src/omxMatrix.cpp | 10 src/omxMatrix.h | 2 src/omxRAMExpectation.cpp | 178 ++++++++++++-- src/omxWLSFitFunction.cpp | 179 +------------- 41 files changed, 740 insertions(+), 342 deletions(-)
Title: Meta-Analysis of Gene Expression Data
Description: A pipeline for the meta-analysis of gene expression data. We have
assembled several analysis and plot functions to
perform integrated multi-cohort analysis of gene expression data (meta-
analysis). Methodology described in:
<http://biorxiv.org/content/early/2016/08/25/071514>.
Author: Winston A. Haynes, Francesco Vallania, Aurelie Tomczak, Timothy Sweeney,
Erika Bongen, Aditya M. Rao, Purvesh Khatri
Maintainer: Aditya M. Rao <adityamr@stanford.edu>
Diff between MetaIntegrator versions 1.0.3 dated 2016-09-29 and 2.0.0 dated 2018-10-05
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More information about MetaIntegrator at CRAN
Permanent link
Title: Simulation of Real and Complex Numbers and Small Programming
Utilities
Description: Simulate real and complex numbers from distributions of their
magnitude and arguments. Optionally, the magnitudes and/or arguments may
be fixed in almost arbitrary ways. Plot density and distribution
functions with automatic selection of suitable regions. Small programming
utilities: check if an object is identical to NA, count positional
arguments in a call, set intersection of more than two sets, check if an
argument is unnamed, compute the graph of S4 classes in packages.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between gbutils versions 0.3-0 dated 2018-08-12 and 0.4-0 dated 2018-10-05
DESCRIPTION | 13 ++++++++----- MD5 | 21 ++++++++++++--------- NAMESPACE | 12 +++++++----- NEWS.md | 36 ++++++++++++++++++++++++------------ R/S4utils.R | 3 +++ R/pseudoInverse.R |only build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib |only inst/doc/Plot_pdf.R | 1 + inst/doc/Plot_pdf.pdf |binary man/adjacencyOfClasses.Rd | 34 +++++++++++++++++++++++++++------- man/pseudoInverse.Rd |only 13 files changed, 82 insertions(+), 38 deletions(-)
Title: Significance Analysis of Event-Related Potentials Data
Description: Functions for signal detection and identification designed for Event-Related Potentials (ERP) data in a linear model framework. The functional F-test proposed in Causeur, Sheu, Perthame, Rufini (2018, submitted) for analysis of variance issues in ERP designs is implemented for signal detection (tests for mean difference among groups of curves in One-way ANOVA designs for example). Once an experimental effect is declared significant, identification of significant intervals is achieved by the multiple testing procedures reviewed and compared in Sheu, Perthame, Lee and Causeur (2016, <DOI:10.1214/15-AOAS888>). Some of the methods gathered in the package are the classical FDR- and FWER-controlling procedures, also available using function p.adjust. The package also implements the Guthrie-Buchwald procedure (Guthrie and Buchwald, 1991 <DOI:10.1111/j.1469-8986.1991.tb00417.x>), which accounts for the auto-correlation among t-tests to control erroneous detection of short intervals. The Adaptive Factor-Adjustment method is an extension of the method described in Causeur, Chu, Hsieh and Sheu (2012, <DOI:10.3758/s13428-012-0230-0>). It assumes a factor model for the correlation among tests and combines adaptively the estimation of the signal and the updating of the dependence modelling (see Sheu et al., 2016, <DOI:10.1214/15-AOAS888> for further details).
Author: David Causeur, Ching-Fan Sheu, Mei-Chen Chu, Flavia Rufini
Maintainer: David Causeur <david.causeur@agrocampus-ouest.fr>
Diff between ERP versions 2.0 dated 2018-06-26 and 2.1 dated 2018-10-05
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- build/partial.rdb |binary inst/doc/ERP.Rmd | 10 +++++----- inst/doc/ERP.html | 29 +++++++++++++++-------------- man/ERP-package.Rd | 2 +- man/erpFtest.Rd | 2 +- man/gbtest.Rd | 2 +- man/impulsivity.Rd | 2 +- vignettes/ERP.Rmd | 10 +++++----- 10 files changed, 43 insertions(+), 42 deletions(-)
Title: Flexible Gaussian Cluster Simulator
Description: Clustering is a central task in big data analyses and clusters are often Gaussian or near Gaussian. However, a flexible Gaussian cluster simulation tool with precise control over the size, variance, and spacing of the clusters in NXN dimensional space does not exist. This is why we created 'clusterlab'. The algorithm first creates X points equally spaced on the circumference of a circle in 2D space. These form the centers of each cluster to be simulated. Additional samples are added by adding Gaussian noise to each cluster center and concatenating the new sample co-ordinates. Then if the feature space is greater than 2D, the generated points are considered principal component scores and projected into N dimensional space using linear combinations using fixed eigenvectors. Through using vector rotations and scalar multiplication clusterlab can generate complex patterns of Gaussian clusters and outliers. The algorithm is highly customizable and well suited to testing class discovery tools across a range of fields.
Author: Christopher R John
Maintainer: Christopher R John <chris.r.john86@gmail.com>
Diff between clusterlab versions 0.0.2.4 dated 2018-09-12 and 0.0.2.5 dated 2018-10-05
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Title: Grouped Statistical Analyses in a Tidy Way
Description: Collection of functions to run statistical tests across all levels
of multiple grouping variables.
Author: Indrajeet Patil [aut, cre] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between groupedstats versions 0.0.2 dated 2018-07-19 and 0.0.3 dated 2018-10-05
groupedstats-0.0.2/groupedstats/inst/rmarkdown |only groupedstats-0.0.3/groupedstats/DESCRIPTION | 27 - groupedstats-0.0.3/groupedstats/LICENSE |only groupedstats-0.0.3/groupedstats/MD5 | 79 ++-- groupedstats-0.0.3/groupedstats/NAMESPACE | 9 groupedstats-0.0.3/groupedstats/NEWS.md | 10 groupedstats-0.0.3/groupedstats/R/data.R | 4 groupedstats-0.0.3/groupedstats/R/grouped_aov.R | 19 groupedstats-0.0.3/groupedstats/R/grouped_glm.R | 41 +- groupedstats-0.0.3/groupedstats/R/grouped_glmer.R | 68 +-- groupedstats-0.0.3/groupedstats/R/grouped_lm.R | 13 groupedstats-0.0.3/groupedstats/R/grouped_lmer.R | 50 +- groupedstats-0.0.3/groupedstats/R/grouped_proptest.R | 9 groupedstats-0.0.3/groupedstats/R/grouped_robustslr.R | 15 groupedstats-0.0.3/groupedstats/R/grouped_slr.R | 15 groupedstats-0.0.3/groupedstats/R/grouped_summary.R | 21 - groupedstats-0.0.3/groupedstats/R/grouped_ttest.R | 17 groupedstats-0.0.3/groupedstats/R/grouped_wilcox.R | 7 groupedstats-0.0.3/groupedstats/R/helpers.R | 164 +++----- groupedstats-0.0.3/groupedstats/R/specify_decimal_p.R |only groupedstats-0.0.3/groupedstats/README.md | 192 +++++++--- groupedstats-0.0.3/groupedstats/man/Titanic_full.Rd | 1 groupedstats-0.0.3/groupedstats/man/figures/README-dependency_plot-1.png |only groupedstats-0.0.3/groupedstats/man/figures/README-grouped_summary3-1.png |binary groupedstats-0.0.3/groupedstats/man/grouped_aov.Rd | 15 groupedstats-0.0.3/groupedstats/man/grouped_glm.Rd | 11 groupedstats-0.0.3/groupedstats/man/grouped_glmer.Rd | 53 +- groupedstats-0.0.3/groupedstats/man/grouped_lm.Rd | 3 groupedstats-0.0.3/groupedstats/man/grouped_lmer.Rd | 29 - groupedstats-0.0.3/groupedstats/man/grouped_proptest.Rd | 7 groupedstats-0.0.3/groupedstats/man/grouped_robustslr.Rd | 11 groupedstats-0.0.3/groupedstats/man/grouped_slr.Rd | 11 groupedstats-0.0.3/groupedstats/man/grouped_summary.Rd | 17 groupedstats-0.0.3/groupedstats/man/grouped_ttest.Rd | 13 groupedstats-0.0.3/groupedstats/man/grouped_wilcox.Rd | 3 groupedstats-0.0.3/groupedstats/man/intent_morality.Rd | 1 groupedstats-0.0.3/groupedstats/man/lm_effsize_ci.Rd | 26 - groupedstats-0.0.3/groupedstats/man/movies_long.Rd | 1 groupedstats-0.0.3/groupedstats/man/movies_wide.Rd | 1 groupedstats-0.0.3/groupedstats/man/signif_column.Rd | 25 - groupedstats-0.0.3/groupedstats/man/specify_decimal_p.Rd | 12 groupedstats-0.0.3/groupedstats/tests/spelling.R | 3 42 files changed, 565 insertions(+), 438 deletions(-)
Title: Fisher-Wright Population Simulation
Description: Simulates a population under the Fisher-Wright model (fixed or stochastic population size) with a one-step neutral mutation process (stepwise mutation model, logistic mutation model and exponential mutation model supported). The stochastic population sizes are random Poisson distributed and different kinds of population growth are supported. For the stepwise mutation model, it is possible to specify locus and direction specific mutation rate (in terms of upwards and downwards mutation rate). Intermediate generations can be saved in order to study e.g. drift.
Author: Mikkel Meyer Andersen and Poul Svante Eriksen
Maintainer: Mikkel Meyer Andersen <mikl@math.aau.dk>
Diff between fwsim versions 0.3.3 dated 2015-01-16 and 0.3.4 dated 2018-10-05
DESCRIPTION | 10 ++-- MD5 | 23 +++++---- NAMESPACE | 5 +- NEWS | 4 + R/RcppExports.R | 16 +++++- R/fwsim.R | 10 ++-- R/proto.R |only man/fwsim.Rd | 3 - src/Makevars.win | 1 src/RcppExports.cpp | 113 ++++++++++++++++++++++++++++++++----------------- src/fwpopsim.cpp | 8 ++- src/fwpopsim_fixed.cpp | 47 +++++++++++++++++++- src/fwsim_types.h |only src/proto.cpp |only 14 files changed, 173 insertions(+), 67 deletions(-)
Title: Matching Algorithms for Causal Inference with Clustered Data
Description: Provides functions to perform matching algorithms for causal inference with clustered data, as described in B. Arpino and M. Cannas (2016) <doi:10.1002/sim.6880>. Pure within-cluster and preferential within-cluster matching are implemented. Both algorithms provide causal estimates with cluster-adjusted estimates of standard errors.
Author: Massimo Cannas [aut, cre],
Bruno Arpino [ctb],
Elena Colicino [ctb]
Maintainer: Massimo Cannas <massimo.cannas@unica.it>
Diff between CMatching versions 2.2 dated 2018-08-27 and 2.2.1 dated 2018-10-05
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/CMatch.R | 15 +++++++++++---- build/partial.rdb |binary man/CMatch.Rd | 6 +++--- man/MatchPW.Rd | 2 +- 6 files changed, 24 insertions(+), 17 deletions(-)
Title: Process Map Token Replay Animation
Description: Token replay animation for process maps created with
'processmapR' by using SVG animations ('SMIL') and the 'htmlwidget' package.
Author: Felix Mannhardt [aut, cre],
Gert Janssenswillen [ctb]
Maintainer: Felix Mannhardt <felix.mannhardt@sintef.no>
Diff between processanimateR versions 0.2.0 dated 2018-09-17 and 0.3.0 dated 2018-10-05
DESCRIPTION | 11 MD5 | 37 - R/add_token_color.R | 1 R/add_token_size.R | 1 R/processanimateR.R | 255 +++++--- README.md | 57 + build/vignette.rds |binary inst/doc/use-shiny-selections.R |only inst/doc/use-shiny-selections.Rmd |only inst/doc/use-shiny-selections.html |only inst/doc/use-with-shiny.R | 22 inst/doc/use-with-shiny.Rmd | 24 inst/doc/use-with-shiny.html | 179 +++-- inst/htmlwidgets/lib/d3-legend |only inst/htmlwidgets/lib/viz/LICENSE | 14 inst/htmlwidgets/lib/viz/lite.render.js |only inst/htmlwidgets/lib/viz/viz.js | 442 +++++++++----- inst/htmlwidgets/processanimateR.js | 974 +++++++++++++++++++++----------- inst/htmlwidgets/processanimateR.yaml | 14 man/animate_process.Rd | 131 ++-- vignettes/use-shiny-selections.Rmd |only vignettes/use-with-shiny.Rmd | 24 22 files changed, 1419 insertions(+), 767 deletions(-)
More information about processanimateR at CRAN
Permanent link
Title: Co-clustering Package for Binary, Categorical, Contingency and
Continuous Data-Sets
Description: Simultaneous clustering of rows and columns, usually designated by
biclustering, co-clustering or block clustering, is an important technique
in two way data analysis. It consists of estimating a mixture model which
takes into account the block clustering problem on both the individual and
variables sets. The 'blockcluster' package provides a bridge between the C++
core library build on top of the 'STK++' library, and the R statistical
computing environment. This package allows to co-cluster binary
<doi:10.1016/j.csda.2007.09.007>, contingency <doi:10.1080/03610920903140197>,
continuous <doi:10.1007/s11634-013-0161-3> and categorical data-sets
<doi:10.1007/s11222-014-9472-2>. It also provides utility functions to
visualize the results. This package may be useful for various applications
in fields of Data mining, Information retrieval, Biology, computer vision
and many more. More information about the project and comprehensive tutorial
can be found on the link mentioned in URL.
Author: Serge Iovleff [aut, cre],
Parmeet Singh Bhatia [aut],
Josselin Demont [ctb],
Vincent Brault [ctb],
Vincent Kubicki [ctb],
Gerard Goavert [ctb],
Christophe Biernacki [ctb],
Gilles Celeux [ctb]
Maintainer: Serge Iovleff <Serge.Iovleff@stkpp.org>
Diff between blockcluster versions 4.2.6 dated 2018-01-24 and 4.3.2 dated 2018-10-05
DESCRIPTION | 26 MD5 | 124 NAMESPACE | 40 R/RCocluster.R | 22 R/cocluster.R | 16 R/coclusterBinary.R | 55 R/coclusterCategorical.R | 24 R/coclusterContingency.R | 35 R/coclusterContinuous.R | 47 R/coclusterStrategy.R | 4 R/optionclasses.R | 450 +- build/vignette.rds |binary inst/NEWS.Rd | 6 inst/doc/blockcluster_tutorial.pdf | 3085 +++++++++------- man/ContingencyOptions-class.Rd | 2 man/ContinuousOptions-class.Rd | 4 man/binarydata.Rd | 1 man/blockcluster.Rd | 1 man/categoricaldata.Rd | 1 man/cocluster.Rd | 11 man/coclusterBinary.Rd | 9 man/coclusterCategorical.Rd | 11 man/coclusterContingency.Rd | 10 man/coclusterContinuous.Rd | 6 man/coclusterStrategy.Rd | 8 man/contingencydatalist.Rd | 1 man/contingencydataunknown.Rd | 1 man/gaussiandata.Rd | 1 man/summary-methods.Rd | 5 src/BinaryDataExchange.cpp | 68 src/CategoricalDataExchange.cpp | 13 src/CategoricalDataExchange.h | 4 src/ContingencyDataExchange.cpp | 42 src/ContinuousDataExchange.cpp | 40 src/IDataExchange.cpp | 111 src/IDataExchange.h | 24 src/Makevars | 2 src/Makevars.win | 2 src/Rcoclustmain.cpp | 52 src/coclust/src/CoClustFacade/CoCluster.cpp | 13 src/coclust/src/InputParameters/InputParameters.cpp | 100 src/coclust/src/InputParameters/InputParameters.h | 8 src/coclust/src/Models/BinaryLBModel.cpp | 126 src/coclust/src/Models/BinaryLBModel.h | 8 src/coclust/src/Models/BinaryLBModelequalepsilon.cpp | 24 src/coclust/src/Models/BinaryLBModelequalepsilon.h | 4 src/coclust/src/Models/CategoricalLBModel.cpp | 78 src/coclust/src/Models/CategoricalLBModel.h | 12 src/coclust/src/Models/ContingencyLBModel.cpp | 14 src/coclust/src/Models/ContingencyLBModel.h | 4 src/coclust/src/Models/ContingencyLBModel_mu_i_nu_j.cpp | 24 src/coclust/src/Models/ContingencyLBModel_mu_i_nu_j.h | 4 src/coclust/src/Models/ContinuousLBModel.cpp | 34 src/coclust/src/Models/ContinuousLBModel.h | 4 src/coclust/src/Models/ContinuousLBModelequalsigma.cpp | 24 src/coclust/src/Models/ContinuousLBModelequalsigma.h | 4 src/coclust/src/Models/ICoClustModel.cpp | 42 src/coclust/src/Models/ICoClustModel.h | 42 src/coclust/src/Strategy/IStrategy.h | 4 src/coclust/src/Strategy/XStrategyAlgo.cpp | 12 src/coclust/src/Strategy/XStrategyforSEMAlgo.cpp | 15 src/coclust/src/enumerations/enumerations.h | 74 src/coclust/src/typedefs/typedef.h | 6 63 files changed, 2736 insertions(+), 2308 deletions(-)
Title: Bayesian Modeling via Frequentist Goodness-of-Fit
Description: A Bayesian data modeling scheme that performs four interconnected tasks: (i) characterizes the uncertainty of the elicited parametric prior; (ii) provides exploratory diagnostic for checking prior-data conflict; (iii) computes the final statistical prior density estimate; and (iv) executes macro- and micro-inference. Primary reference is Mukhopadhyay, S. and Fletcher, D. 2018 paper "Generalized Empirical Bayes via Frequentist Goodness of Fit" (<https://www.nature.com/articles/s41598-018-28130-5 >).
Author: Subhadeep Mukhopadhyay, Douglas Fletcher
Maintainer: Doug Fletcher <tug25070@temple.edu>
Diff between BayesGOF versions 5.0 dated 2018-10-04 and 5.1 dated 2018-10-05
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/DS.prior.bbu.R | 5 +++-- R/DS.prior.nnu.R | 5 +++-- R/DS.prior.pgu.R | 3 ++- build/partial.rdb |binary inst/doc/vignette_BayesGOF.html | 10 +++++----- 7 files changed, 23 insertions(+), 20 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
(<https://orcid.org/0000-0002-0734-2199>),
Christoph Burow [aut, trl, dtc]
(<https://orcid.org/0000-0002-5023-4046>),
Michael Dietze [aut] (<https://orcid.org/0000-0001-6063-1726>),
Margret C. Fuchs [aut],
Christoph Schmidt [aut] (<https://orcid.org/0000-0002-2309-3209>),
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] (<https://orcid.org/0000-0002-0805-9547>),
Norbert Mercier [ctb],
Rachel K. Smedley [ctb] (<https://orcid.org/0000-0001-7773-5193>),
Claire Christophe [ctb],
Antoine Zink [ctb],
Julie Durcan [ctb] (<https://orcid.org/0000-0001-8724-8022>),
Georgina E. King [ctb, dtc] (<https://orcid.org/0000-0003-1059-8192>),
Anne Philippe [ctb],
Guillaume Guerin [ctb] (<https://orcid.org/0000-0001-6298-5579>),
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@u-bordeaux-montaigne.fr>
Diff between Luminescence versions 0.8.5 dated 2018-06-08 and 0.8.6 dated 2018-10-05
DESCRIPTION | 10 MD5 | 254 +++++++++++----------- NEWS | 59 +++++ R/Luminescence-package.R | 6 R/analyse_Al2O3C_Measurement.R | 9 R/analyse_IRSAR.RF.R | 3 R/analyse_SAR.CWOSL.R | 30 +- R/analyse_pIRIRSequence.R | 4 R/plot_DetPlot.R | 71 +++--- R/plot_GrowthCurve.R | 21 + R/plot_KDE.R | 44 ++- R/plot_RadialPlot.R | 155 ++++++------- R/report_RLum.R | 376 ++++++++++++++++----------------- build/vignette.rds |binary inst/NEWS.Rd | 71 ++++++ man/Analyse_SAR.OSLdata.Rd | 6 man/CW2pHMi.Rd | 2 man/CW2pLM.Rd | 2 man/CW2pLMi.Rd | 2 man/CW2pPMi.Rd | 2 man/GitHub-API.Rd | 15 - man/Luminescence-package.Rd | 6 man/PSL2Risoe.BINfileData.Rd | 2 man/RLum-class.Rd | 2 man/RLum.Analysis-class.Rd | 7 man/RLum.Data.Curve-class.Rd | 6 man/RLum.Data.Image-class.Rd | 2 man/RLum.Data.Spectrum-class.Rd | 6 man/RLum.Results-class.Rd | 6 man/Risoe.BINfileData-class.Rd | 2 man/Risoe.BINfileData2RLum.Analysis.Rd | 2 man/Second2Gray.Rd | 2 man/analyse_Al2O3C_CrossTalk.Rd | 9 man/analyse_Al2O3C_ITC.Rd | 6 man/analyse_Al2O3C_Measurement.Rd | 6 man/analyse_FadingMeasurement.Rd | 10 man/analyse_IRSAR.RF.Rd | 13 - man/analyse_SAR.CWOSL.Rd | 10 man/analyse_SAR.TL.Rd | 6 man/analyse_baSAR.Rd | 2 man/analyse_pIRIRSequence.Rd | 4 man/analyse_portableOSL.Rd | 2 man/app_RLum.Rd | 2 man/apply_CosmicRayRemoval.Rd | 8 man/apply_EfficiencyCorrection.Rd | 2 man/as.Rd | 4 man/bin_RLum.Data.Rd | 2 man/calc_AliquotSize.Rd | 2 man/calc_AverageDose.Rd | 2 man/calc_CentralDose.Rd | 2 man/calc_CommonDose.Rd | 2 man/calc_CosmicDoseRate.Rd | 2 man/calc_FadingCorr.Rd | 2 man/calc_FastRatio.Rd | 2 man/calc_FiniteMixture.Rd | 6 man/calc_FuchsLang2001.Rd | 6 man/calc_HomogeneityTest.Rd | 2 man/calc_Huntley2006.Rd | 5 man/calc_IEU.Rd | 2 man/calc_Kars2008.Rd | 2 man/calc_Lamothe2003.Rd | 2 man/calc_MaxDose.Rd | 2 man/calc_MinDose.Rd | 2 man/calc_OSLLxTxRatio.Rd | 6 man/calc_SourceDoseRate.Rd | 2 man/calc_Statistics.Rd | 6 man/calc_TLLxTxRatio.Rd | 7 man/calc_ThermalLifetime.Rd | 7 man/calc_WodaFuchs2008.Rd | 2 man/calc_gSGC.Rd | 2 man/convert_Activity2Concentration.Rd | 5 man/convert_BIN2CSV.Rd | 2 man/convert_Daybreak2CSV.Rd | 2 man/convert_PSL2CSV.Rd | 2 man/convert_RLum2Risoe.BINfileData.Rd | 4 man/convert_XSYG2CSV.Rd | 2 man/extract_IrradiationTimes.Rd | 8 man/fit_CWCurve.Rd | 2 man/fit_LMCurve.Rd | 2 man/fit_SurfaceExposure.Rd | 6 man/get_Layout.Rd | 2 man/get_Quote.Rd | 2 man/get_RLum.Rd | 4 man/get_Risoe.BINfileData.Rd | 2 man/get_rightAnswer.Rd | 2 man/length_RLum.Rd | 2 man/merge_RLum.Analysis.Rd | 2 man/merge_RLum.Data.Curve.Rd | 2 man/merge_RLum.Rd | 2 man/merge_RLum.Results.Rd | 2 man/merge_Risoe.BINfileData.Rd | 4 man/model_LuminescenceSignals.Rd | 2 man/names_RLum.Rd | 2 man/plot_AbanicoPlot.Rd | 17 - man/plot_DRTResults.Rd | 2 man/plot_DetPlot.Rd | 10 man/plot_FilterCombinations.Rd | 5 man/plot_GrowthCurve.Rd | 8 man/plot_Histogram.Rd | 6 man/plot_KDE.Rd | 4 man/plot_NRt.Rd | 6 man/plot_RLum.Analysis.Rd | 4 man/plot_RLum.Data.Curve.Rd | 2 man/plot_RLum.Data.Image.Rd | 6 man/plot_RLum.Data.Spectrum.Rd | 10 man/plot_RLum.Rd | 2 man/plot_RLum.Results.Rd | 2 man/plot_RadialPlot.Rd | 4 man/plot_Risoe.BINfileData.Rd | 8 man/plot_ViolinPlot.Rd | 2 man/read_BIN2R.Rd | 8 man/read_Daybreak2R.Rd | 5 man/read_PSL2R.Rd | 6 man/read_SPE2R.Rd | 2 man/read_XSYG2R.Rd | 2 man/replicate_RLum.Rd | 2 man/report_RLum.Rd | 23 +- man/sTeve.Rd | 2 man/set_RLum.Rd | 5 man/set_Risoe.BINfileData.Rd | 2 man/smooth_RLum.Rd | 2 man/structure_RLum.Rd | 2 man/template_DRAC.Rd | 2 man/tune_Data.Rd | 2 man/use_DRAC.Rd | 5 man/verify_SingleGrainData.Rd | 2 man/write_R2BIN.Rd | 2 man/write_RLum2CSV.Rd | 2 128 files changed, 881 insertions(+), 704 deletions(-)
Title: Portable File Locking
Description: Place an exclusive or shared lock on a file. It uses 'LockFile'
on Windows and 'fcntl' locks on Unix-like systems.
Author: Gábor Csárdi
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between filelock versions 1.0.1 dated 2018-02-07 and 1.0.2 dated 2018-10-05
DESCRIPTION | 6 +++--- MD5 | 13 +++++++------ NEWS.md | 6 ++++++ R/package.R | 10 +++++----- inst |only man/lock.Rd | 10 +++++----- src/filelock-unix.c | 8 ++++++++ tests/testthat/test.R | 21 +++++++++++---------- 8 files changed, 45 insertions(+), 29 deletions(-)
Title: Gaussian Mixture Models, K-Means, Mini-Batch-Kmeans and
K-Medoids Clustering
Description: Gaussian mixture models, k-means, mini-batch-kmeans and k-medoids clustering with the option to plot, validate, predict (new data) and estimate the optimal number of clusters. The package takes advantage of 'RcppArmadillo' to
speed up the computationally intensive parts of the functions. For more information, see (i) "Clustering in an Object-Oriented Environment" by Anja Struyf, Mia Hubert, Peter Rousseeuw (1997), Journal of Statistical Software, <doi:10.18637/jss.v001.i04>; (ii) "Web-scale k-means clustering" by D. Sculley (2010), ACM Digital Library, <doi:10.1145/1772690.1772862>; (iii) "Armadillo: a template-based C++ library for linear algebra" by Sanderson et al (2016), The Journal of Open Source Software, <doi:10.21105/joss.00026>.
Author: Lampros Mouselimis <mouselimislampros@gmail.com>
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between ClusterR versions 1.1.4 dated 2018-08-22 and 1.1.5 dated 2018-10-05
DESCRIPTION | 8 +++---- MD5 | 12 +++++------ NEWS.md | 7 +++++- R/clustering_functions.R | 40 ++++++++++++++++++------------------- README.md | 3 -- inst/doc/the_clusterR_package.html | 12 +++++------ tests/testthat/test-kmeans.R | 21 +++++++++++++++++++ 7 files changed, 64 insertions(+), 39 deletions(-)
Title: Advanced Graphics and Image-Processing in R
Description: Bindings to 'ImageMagick': the most comprehensive open-source image
processing library available. Supports many common formats (png, jpeg, tiff,
pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc).
All operations are vectorized via the Magick++ STL meaning they operate either
on a single frame or a series of frames for working with layers, collages,
or animation. In RStudio images are automatically previewed when printed to
the console, resulting in an interactive editing environment. The latest
version of the package includes a native graphics device for creating
in-memory graphics or drawing onto images using pixel coordinates.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between magick versions 1.9 dated 2018-05-11 and 2.0 dated 2018-10-05
DESCRIPTION | 16 ++-- LICENSE | 2 MD5 | 100 +++++++++++++++----------- NAMESPACE | 18 ++++ NEWS | 13 +++ R/RcppExports.R | 52 ++++++++++++-- R/attributes.R | 3 R/base.R | 21 ++++- R/edges.R |only R/edit.R | 6 + R/effects.R | 33 -------- R/fx.R |only R/init.R | 31 ++++++++ R/morphology.R |only R/ocr.R | 5 - R/options.R | 6 + R/segmentation.R |only R/threshold.R |only R/utils.R | 6 + R/video.R |only build/vignette.rds |binary configure | 2 inst/WORDLIST | 9 +- inst/doc/intro.Rmd | 4 - inst/images |only man/analysis.Rd | 11 +- man/animation.Rd | 10 +- man/attributes.Rd | 10 +- man/color.Rd | 10 +- man/composite.Rd | 14 ++- man/device.Rd | 14 ++- man/edges.Rd |only man/editing.Rd | 13 ++- man/effects.Rd | 30 +------- man/fx.Rd |only man/geometry.Rd | 13 ++- man/magick.Rd | 11 +- man/morphology.Rd |only man/ocr.Rd | 14 ++- man/options.Rd | 13 ++- man/painting.Rd | 14 ++- man/segmentation.Rd |only man/thresholding.Rd |only man/transform.Rd | 10 +- man/video.Rd |only src/RcppExports.cpp | 178 ++++++++++++++++++++++++++++++++++++++++++++---- src/animation.cpp | 2 src/attributes.cpp | 2 src/base.cpp | 4 - src/color.cpp | 54 ++++++++++++++ src/convolve.cpp | 42 +++++++++++ src/edges.cpp |only src/edit.cpp | 25 ++++++ src/options.cpp | 20 +++++ src/segment.cpp |only src/transformations.cpp | 9 -- vignettes/intro.Rmd | 4 - 57 files changed, 638 insertions(+), 216 deletions(-)
Title: Locally Gaussian Distributions: Estimation and Methods
Description: An implementation of locally Gaussian distributions. It provides methods for
implementing the locally Gaussian density estimator (LGDE) by Otneim and Tjøstheim (2017)
<doi:10.1007/s11222-016-9706-6>, as well as the corresponding estimator for conditional
density functions by Otneim and Tjøstheim (2018) <doi:10.1007/s11222-017-9732-z>.
Author: Håkon Otneim [aut, cre]
Maintainer: Håkon Otneim <hakon.otneim@nhh.no>
Diff between lg versions 0.1.0 dated 2017-12-05 and 0.2.0 dated 2018-10-05
DESCRIPTION | 14 - MD5 | 46 +++-- NAMESPACE | 5 NEWS.md |only R/density_estimation.R | 263 +++++++++++++++++++++++++++--- R/helping_functions.R | 55 ++++++ R/lg.R | 15 - R/main_function.R | 10 - R/partial_correlation.R |only R/plotting.R | 71 +++++--- R/test_conditional_independence.R |only man/accept_reject.Rd |only man/bw_select_plugin_multivariate.Rd | 3 man/bw_select_plugin_univariate.Rd | 3 man/ci_test.Rd |only man/ci_test_statistic.Rd |only man/clg.Rd | 24 ++ man/corplot.Rd | 9 - man/dlg.Rd | 48 +++-- man/dlg_marginal.Rd | 4 man/dmvnorm_wrapper.Rd | 7 man/gradient.Rd |only man/interpolate_conditional_density.Rd |only man/lg.Rd | 11 - man/lg_main.Rd | 10 - man/local_conditional_covariance.Rd |only man/make_C.Rd |only man/partial_cor.Rd |only man/replicate_under_ci.Rd |only man/u.Rd |only tests/testthat/test_partial_correlation.R |only 31 files changed, 479 insertions(+), 119 deletions(-)
Title: Tools for Model Specification in the Latent Variable Framework
Description: Tools for model specification in the latent variable framework
(add-on to the 'lava' package). The package contains three main functionalities:
Wald tests/F-tests with improved control of the type 1 error in small samples,
adjustment for multiple comparisons when searching for local dependencies,
and adjustment for multiple comparisons when doing inference for multiple latent variable models.
Author: Brice Ozenne [aut, cre] (<https://orcid.org/0000-0001-9694-2956>)
Maintainer: Brice Ozenne <brice.ozenne@orange.fr>
Diff between lavaSearch2 versions 1.3.5 dated 2018-07-17 and 1.4 dated 2018-10-05
lavaSearch2-1.3.5/lavaSearch2/R/compareSearch.R |only lavaSearch2-1.3.5/lavaSearch2/R/modelsearchLR.R |only lavaSearch2-1.3.5/lavaSearch2/R/modelsearchMax.R |only lavaSearch2-1.3.5/lavaSearch2/man/compareSearch.Rd |only lavaSearch2-1.3.5/lavaSearch2/man/merge.Rd |only lavaSearch2-1.3.5/lavaSearch2/man/modelsearchLR.Rd |only lavaSearch2-1.3.5/lavaSearch2/man/modelsearchMax.Rd |only lavaSearch2-1.3.5/lavaSearch2/tests/testthat/test2-compareSearch.R |only lavaSearch2-1.4/lavaSearch2/DESCRIPTION | 19 lavaSearch2-1.4/lavaSearch2/MD5 | 181 lavaSearch2-1.4/lavaSearch2/NAMESPACE | 6 lavaSearch2-1.4/lavaSearch2/NEWS | 4 lavaSearch2-1.4/lavaSearch2/R/0onload.R | 5 lavaSearch2-1.4/lavaSearch2/R/calcDistMax.R | 31 lavaSearch2-1.4/lavaSearch2/R/calcType1postSelection.R | 4 lavaSearch2-1.4/lavaSearch2/R/calibrateType1.R | 8 lavaSearch2-1.4/lavaSearch2/R/checkData.R | 8 lavaSearch2-1.4/lavaSearch2/R/coefByType.R | 16 lavaSearch2-1.4/lavaSearch2/R/coefType.R | 8 lavaSearch2-1.4/lavaSearch2/R/compare2.R | 10 lavaSearch2-1.4/lavaSearch2/R/createContrast.R | 7 lavaSearch2-1.4/lavaSearch2/R/defineCategoricalLink.R | 6 lavaSearch2-1.4/lavaSearch2/R/getVarCov2.R | 7 lavaSearch2-1.4/lavaSearch2/R/link.R | 38 lavaSearch2-1.4/lavaSearch2/R/matrixPower.R | 22 lavaSearch2-1.4/lavaSearch2/R/methods-modelsearch2.R | 233 - lavaSearch2-1.4/lavaSearch2/R/modelsearch2.R | 976 ++--- lavaSearch2-1.4/lavaSearch2/R/multcomp.R | 109 lavaSearch2-1.4/lavaSearch2/R/package-butils-evalInParentEnv.R | 7 lavaSearch2-1.4/lavaSearch2/R/package-butils-extractData.R | 14 lavaSearch2-1.4/lavaSearch2/R/residuals2.R | 9 lavaSearch2-1.4/lavaSearch2/R/sCorrect.R | 15 lavaSearch2-1.4/lavaSearch2/R/summary.modelsearch2.R | 87 lavaSearch2-1.4/lavaSearch2/R/summary2.R | 6 lavaSearch2-1.4/lavaSearch2/R/var2dummy.R | 12 lavaSearch2-1.4/lavaSearch2/build |only lavaSearch2-1.4/lavaSearch2/inst/doc |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/Table1.docx |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/bibliography.bib | 20 lavaSearch2-1.4/lavaSearch2/inst/vignettes/data.csv |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/data.txt |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/data.xlsx |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/figures/descriptive.pdf |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/figures/diag-lm.pdf |binary lavaSearch2-1.4/lavaSearch2/inst/vignettes/figures/hist-lm.pdf |binary lavaSearch2-1.4/lavaSearch2/inst/vignettes/figures/qqplot-lm.pdf |only lavaSearch2-1.4/lavaSearch2/inst/vignettes/lavaSearch2-WP1.bbl | 16 lavaSearch2-1.4/lavaSearch2/inst/vignettes/lavaSearch2-WP1.org | 1877 +++++----- lavaSearch2-1.4/lavaSearch2/inst/vignettes/lavaSearch2-WP1.pdf |binary lavaSearch2-1.4/lavaSearch2/inst/vignettes/lavaSearch2-WP1.tex | 1838 ++++----- lavaSearch2-1.4/lavaSearch2/man/addLink.Rd | 8 lavaSearch2-1.4/lavaSearch2/man/autoplot.modelsearch2.Rd |only lavaSearch2-1.4/lavaSearch2/man/calcDistMax.Rd | 21 lavaSearch2-1.4/lavaSearch2/man/calcType1postSelection.Rd | 8 lavaSearch2-1.4/lavaSearch2/man/calibrateType1.Rd | 20 lavaSearch2-1.4/lavaSearch2/man/checkData.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/coef2-internal.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/coefByType.Rd | 23 lavaSearch2-1.4/lavaSearch2/man/coefType.Rd | 12 lavaSearch2-1.4/lavaSearch2/man/compare2.Rd | 24 lavaSearch2-1.4/lavaSearch2/man/conditionalMoment.Rd | 7 lavaSearch2-1.4/lavaSearch2/man/createContrast.Rd | 11 lavaSearch2-1.4/lavaSearch2/man/createGrid.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/defineCategoricalLink.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/estfun.lvmfit.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/evalInParentEnv.Rd | 8 lavaSearch2-1.4/lavaSearch2/man/extractData.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/findNewLink.Rd | 14 lavaSearch2-1.4/lavaSearch2/man/getCluster2-internal.Rd | 5 lavaSearch2-1.4/lavaSearch2/man/getIndexOmega2-internal.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/getNewLink.Rd | 18 lavaSearch2-1.4/lavaSearch2/man/getNewModel.Rd |only lavaSearch2-1.4/lavaSearch2/man/getStep.Rd | 20 lavaSearch2-1.4/lavaSearch2/man/getVarCov2-internal.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/getVarCov2.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/glht2.Rd | 15 lavaSearch2-1.4/lavaSearch2/man/iid2.Rd | 23 lavaSearch2-1.4/lavaSearch2/man/iidJack.Rd | 9 lavaSearch2-1.4/lavaSearch2/man/information2-internal.Rd | 7 lavaSearch2-1.4/lavaSearch2/man/intDensTri.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/lavaSearch2.Rd | 1 lavaSearch2-1.4/lavaSearch2/man/leverage2.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/matrixPower.Rd | 5 lavaSearch2-1.4/lavaSearch2/man/modelsearch2.Rd | 148 lavaSearch2-1.4/lavaSearch2/man/nStep.Rd | 9 lavaSearch2-1.4/lavaSearch2/man/residuals2.Rd | 16 lavaSearch2-1.4/lavaSearch2/man/sCorrect.Rd | 40 lavaSearch2-1.4/lavaSearch2/man/score2.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/setLink.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/skeleton.Rd | 25 lavaSearch2-1.4/lavaSearch2/man/summary.calibrateType1.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/summary.modelsearch2.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/summary2.Rd | 4 lavaSearch2-1.4/lavaSearch2/man/validFCTs.Rd | 33 lavaSearch2-1.4/lavaSearch2/man/vcov2.Rd | 8 lavaSearch2-1.4/lavaSearch2/tests/testthat/test-coefType.R | 19 lavaSearch2-1.4/lavaSearch2/tests/testthat/test1-sCorrect-validObjects.R | 8 lavaSearch2-1.4/lavaSearch2/tests/testthat/test2-modelsearch2.R | 34 lavaSearch2-1.4/lavaSearch2/vignettes |only 99 files changed, 3138 insertions(+), 3124 deletions(-)
Title: Bayesian Graphical Estimation using Spike-and-Slab Priors
Description: For Bayesian inference in undirected graphical models using spike-and-slab priors, continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models' literature, including Wang (2015) <doi:10.1214/14-BA916>. To speed up the computations, the computationally intensive tasks of the package are implemented in C++ in parallel using OpenMP.
Author: Reza Mohammadi <https://orcid.org/0000-0001-9538-0648>
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between ssgraph versions 1.4 dated 2018-07-04 and 1.5 dated 2018-10-05
ssgraph-1.4/ssgraph/R/check.os.R |only ssgraph-1.4/ssgraph/src/check_os.cpp |only ssgraph-1.5/ssgraph/DESCRIPTION | 11 +- ssgraph-1.5/ssgraph/MD5 | 28 ++---- ssgraph-1.5/ssgraph/NAMESPACE | 9 - ssgraph-1.5/ssgraph/NEWS | 4 ssgraph-1.5/ssgraph/R/ssgraph.R | 130 +++++++++++++++------------- ssgraph-1.5/ssgraph/inst/CITATION | 2 ssgraph-1.5/ssgraph/man/plot.ssgraph.Rd | 8 - ssgraph-1.5/ssgraph/man/print.ssgraph.Rd | 6 - ssgraph-1.5/ssgraph/man/ssgraph-package.Rd | 14 +-- ssgraph-1.5/ssgraph/man/ssgraph.Rd | 22 ++-- ssgraph-1.5/ssgraph/man/summary.ssgraph.Rd | 10 +- ssgraph-1.5/ssgraph/src/gcgm_spike_slab.cpp | 36 ++++--- ssgraph-1.5/ssgraph/src/ggm_spike_slab.cpp | 44 +++++---- ssgraph-1.5/ssgraph/src/ssgraph_init.c | 2 16 files changed, 171 insertions(+), 155 deletions(-)
Title: Low-Rank Interaction Contingency Tables
Description: Analysis of count data with covariates. LORI uses a log-linear model where main row and column effects are decomposed as regression terms on known covariates. A residual low-rank interaction term is also fitted.
Author: Genevieve Robin [aut, cre]
Maintainer: Genevieve Robin <genevieve.robin@polytechnique.edu>
Diff between lori versions 0.2.0 dated 2018-09-12 and 0.2.1 dated 2018-10-05
DESCRIPTION | 6 MD5 | 10 R/lori.R | 6 R/lori_tools.R | 3 build/vignette.rds |binary inst/doc/example.html | 858 +++++++++++++++++++++----------------------------- 6 files changed, 382 insertions(+), 501 deletions(-)
Title: Distance Measures for Networks
Description: Network is a prevalent form of data structure in many fields. As an object of analysis, many distance or metric measures have been proposed to define the concept of similarity between two networks. We provide a number of distance measures for networks. See Jurman et al (2011) <doi:10.3233/978-1-60750-692-8-227> for an overview on spectral class of inter-graph distance measures.
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyou@nd.edu>
Diff between NetworkDistance versions 0.1.0 dated 2017-12-08 and 0.3.0 dated 2018-10-05
DESCRIPTION | 12 +++--- MD5 | 32 ++++++++++------- NAMESPACE | 2 + R/NetworkDistance.R | 1 R/RcppExports.R | 24 ++++++++++++ R/auxiliary_HodgeLaplacian.R |only R/auxiliary_invisible.R | 80 +++++++++++++++++++++++++++++++++++++++++++ R/nd_gdd.R | 37 +++++++++++-------- R/nd_nfd.R |only build/partial.rdb |binary inst/REFERENCES.bib | 23 ------------ man/nd.nfd.Rd |only man/nd_centrality.Rd | 4 +- man/nd_gdd.Rd | 3 + src/Makevars | 4 +- src/Makevars.win | 4 +- src/RcppExports.cpp | 56 ++++++++++++++++++++++++++++++ src/dist_lapflow.cpp |only src/single_gdd.cpp |only src/testerCPP.cpp |only 20 files changed, 219 insertions(+), 63 deletions(-)
More information about NetworkDistance at CRAN
Permanent link
Title: 'R' 'Markdown' Themes for 'UIUC' Documents and Presentations
Description: A set of custom 'R' 'Markdown' templates for documents and
presentations with the University of Illinois at Urbana-Champaign (UIUC)
color scheme and identity standards.
Author: James Balamuta [aut, cre] (<https://orcid.org/0000-0003-2826-8458>),
Steven Andrew Culpepper [ctb] (Provided the Minimal Orange Beamer
Theme),
David Dalpiaz [ctb] (Collaborated on the LaTeX Journal Theme),
Jose Luis Rodriguez [ctb] (Provided the Market Information Lab (MIL)
Beamer Theme)
Maintainer: James Balamuta <balamut2@illinois.edu>
Diff between uiucthemes versions 0.2.0 dated 2018-01-22 and 0.2.1 dated 2018-10-05
uiucthemes-0.2.0/uiucthemes/inst/rmarkdown/templates/latex_journal_format/skeleton/stat432-logo.png |only uiucthemes-0.2.1/uiucthemes/DESCRIPTION | 34 +- uiucthemes-0.2.1/uiucthemes/MD5 | 50 ++- uiucthemes-0.2.1/uiucthemes/NAMESPACE | 1 uiucthemes-0.2.1/uiucthemes/NEWS.md | 14 + uiucthemes-0.2.1/uiucthemes/R/beamer_templates.R | 132 +++++++--- uiucthemes-0.2.1/uiucthemes/R/latex_templates.R | 6 uiucthemes-0.2.1/uiucthemes/README.md | 11 uiucthemes-0.2.1/uiucthemes/build |only uiucthemes-0.2.1/uiucthemes/inst/doc |only uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/beamer_illinois/skeleton/skeleton.Rmd | 2 uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/beamer_illinois/template.yaml | 6 uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/beamer_mil |only uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/beamer_orange/skeleton/skeleton.Rmd | 2 uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/beamer_orange/template.yaml | 6 uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/latex_journal_format/skeleton/jss.cls | 2 uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/latex_journal_format/skeleton/skeleton.Rmd | 10 uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/latex_journal_format/skeleton/stat-logo.png |only uiucthemes-0.2.1/uiucthemes/inst/rmarkdown/templates/latex_journal_format/template.yaml | 4 uiucthemes-0.2.1/uiucthemes/man/beamer_illinois.Rd | 11 uiucthemes-0.2.1/uiucthemes/man/beamer_mil.Rd |only uiucthemes-0.2.1/uiucthemes/man/beamer_orange.Rd | 11 uiucthemes-0.2.1/uiucthemes/man/latex_journal_format.Rd | 4 uiucthemes-0.2.1/uiucthemes/man/uiucthemes-defunct.Rd | 1 uiucthemes-0.2.1/uiucthemes/man/uiucthemes-package.Rd | 11 uiucthemes-0.2.1/uiucthemes/vignettes |only 26 files changed, 216 insertions(+), 102 deletions(-)
Title: Succinct and Correct Statistical Summaries for Reports
Description: Succinctly and correctly format statistical summaries of
various models and tests (F-test, Chi-Sq-test, Fisher-test, T-test, and rank-significance). The main purpose is unified reporting
of experimental results, working around issue such as the difficulty of
extracting model summary facts (such as with 'lm'/'glm'). This package also
includes empirical tests, such as bootstrap estimates.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between sigr versions 1.0.1 dated 2018-09-28 and 1.0.2 dated 2018-10-05
sigr-1.0.1/sigr/man/Bernoulli_diff_dist.Rd |only sigr-1.0.2/sigr/DESCRIPTION | 8 sigr-1.0.2/sigr/MD5 | 39 +- sigr-1.0.2/sigr/NAMESPACE | 11 sigr-1.0.2/sigr/NEWS.md | 8 sigr-1.0.2/sigr/R/BinomTest.R | 235 ++++++++++-- sigr-1.0.2/sigr/R/DifferenceDistribution.R | 315 ++++++++++------- sigr-1.0.2/sigr/R/TInterval.R |only sigr-1.0.2/sigr/README.md | 4 sigr-1.0.2/sigr/inst/doc/lmExample.html | 4 sigr-1.0.2/sigr/inst/doc/sigrFormatting.html | 4 sigr-1.0.2/sigr/man/Bernoulli_diff_stat.Rd |only sigr-1.0.2/sigr/man/TInterval.Rd |only sigr-1.0.2/sigr/man/TInterval.data.frame.Rd |only sigr-1.0.2/sigr/man/TInterval.numeric.Rd |only sigr-1.0.2/sigr/man/TIntervalS.Rd |only sigr-1.0.2/sigr/man/render.sigr_Bernoulli_diff_test.Rd | 6 sigr-1.0.2/sigr/man/render.sigr_binomtest.Rd | 4 sigr-1.0.2/sigr/man/render.sigr_tinterval.Rd |only sigr-1.0.2/sigr/man/wrapBinomTest.Rd | 6 sigr-1.0.2/sigr/man/wrapBinomTest.data.frame.Rd | 13 sigr-1.0.2/sigr/man/wrapBinomTest.htest.Rd | 10 sigr-1.0.2/sigr/man/wrapBinomTest.logical.Rd |only sigr-1.0.2/sigr/man/wrapBinomTest.numeric.Rd |only sigr-1.0.2/sigr/man/wrapBinomTestS.Rd |only sigr-1.0.2/sigr/tests/testthat/testBD.R | 30 - 26 files changed, 471 insertions(+), 226 deletions(-)
Title: ANSI Control Sequence Aware String Functions
Description: Counterparts to R string manipulation functions that account for
the effects of ANSI text formatting control sequences.
Author: Brodie Gaslam [aut, cre],
Elliott Sales De Andrade [ctb],
R Core Team [cph] (UTF8 byte length calcs from src/util.c)
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>
Diff between fansi versions 0.3.0 dated 2018-08-13 and 0.4.0 dated 2018-10-05
DESCRIPTION | 9 + MD5 | 120 ++++++++++++------------- NAMESPACE | 9 + NEWS.md | 24 +++++ R/constants.R | 17 ++- R/fansi-package.R | 13 +- R/has.R | 34 ++++--- R/internal.R | 2 R/load.R | 1 R/misc.R | 38 +++++--- R/nchar.R | 69 ++++++++++---- R/strip.R | 45 +++++---- R/strsplit.R | 75 ++++++++++++--- R/strtrim.R | 51 +++++++++- R/strwrap.R | 75 ++++++++++++++- R/substr2.R | 118 +++++++++++++++++++++--- R/unhandled.R | 21 +++- man/fansi.Rd | 15 ++- man/has_ctl.Rd | 44 ++++++++- man/nchar_ctl.Rd | 62 +++++++++---- man/set_knit_hooks.Rd | 6 - man/strip_ctl.Rd | 32 +++++- man/strsplit_ctl.Rd | 54 ++++++++++- man/strtrim_ctl.Rd | 39 ++++++++ man/strwrap_ctl.Rd | 65 +++++++++++-- man/substr_ctl.Rd | 68 ++++++++++++-- man/tabs_as_spaces.Rd | 20 +++- man/term_cap_test.Rd | 10 +- man/unhandled_ctl.Rd | 16 ++- src/fansi.h | 67 +++++++++----- src/has.c | 12 +- src/init.c | 12 +- src/nchar.c | 27 ++++- src/read.c | 142 +++++++++++++++++++++--------- src/state.c | 58 ++++++++++-- src/strip.c | 14 +- src/tabs.c | 9 + src/tohtml.c | 42 ++++++++ src/unhandled.c | 8 + src/utils.c | 69 +++++++------- src/wrap.c | 80 +++++++++++----- tests/unitizer/has.R | 25 ++++- tests/unitizer/has.unitizer/data.rds |binary tests/unitizer/misc.R | 27 ++++- tests/unitizer/misc.unitizer/data.rds |binary tests/unitizer/nchar.R | 19 +++- tests/unitizer/nchar.unitizer/data.rds |binary tests/unitizer/strip.R | 6 - tests/unitizer/strip.unitizer/data.rds |binary tests/unitizer/strsplit.R | 21 ++++ tests/unitizer/strsplit.unitizer/data.rds |binary tests/unitizer/substr.R | 45 +++++++++ tests/unitizer/substr.unitizer/data.rds |binary tests/unitizer/tabs.R | 2 tests/unitizer/tabs.unitizer/data.rds |binary tests/unitizer/tohtml.R | 16 +++ tests/unitizer/tohtml.unitizer/data.rds |binary tests/unitizer/utf8.R | 34 ++++++- tests/unitizer/utf8.unitizer/data.rds |binary tests/unitizer/wrap.R | 53 +++++++++++ tests/unitizer/wrap.unitizer/data.rds |binary 61 files changed, 1524 insertions(+), 416 deletions(-)
Title: Interface with the United Nations Comtrade API
Description: Interface with and extract data from the United Nations Comtrade
API <https://comtrade.un.org/data/>. Comtrade provides country level shipping
data for a variety of commodities, these functions allow for easy API query
and data returned as a tidy data frame.
Author: Chris Muir [aut, cre],
Alicia Schep [rev] (<https://orcid.org/0000-0002-3915-0618>, Alicia
reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/141),
Rafael Hellwig [rev] (<https://orcid.org/0000-0002-3092-3493>, Rafael
reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/141)
Maintainer: Chris Muir <chrismuirRVA@gmail.com>
Diff between comtradr versions 0.2.1 dated 2018-05-06 and 0.2.2 dated 2018-10-05
DESCRIPTION | 10 MD5 | 80 - NAMESPACE | 24 NEWS.md | 133 +- R/comtradr.R | 120 - R/ct_commodity_db_type.R | 72 - R/ct_commodity_lookup.R | 220 +-- R/ct_country_lookup.R | 126 +- R/ct_search.R | 1090 +++++++++--------- R/ct_update_databases.R | 542 ++++---- R/ct_use_pretty_cols.R | 92 - R/rate_limit.R | 198 +-- R/utils.R | 224 +-- R/zzz.R | 72 - README.md | 316 ++--- build/vignette.rds |binary inst/doc/comtradr-vignette.R | 408 +++--- inst/doc/comtradr-vignette.Rmd | 616 +++++----- inst/doc/comtradr-vignette.html | 854 +++++++------- man/comtradr.Rd | 110 - man/ct_commodity_db_type.Rd | 84 - man/ct_commodity_lookup.Rd | 134 +- man/ct_country_lookup.Rd | 94 - man/ct_get_remaining_hourly_queries.Rd | 34 man/ct_get_reset_time.Rd | 42 man/ct_pretty_cols.Rd | 34 man/ct_register_token.Rd | 48 man/ct_search.Rd | 286 ++-- man/ct_update_databases.Rd | 179 +- man/ct_use_pretty_cols.Rd | 58 tests/testthat.R | 8 tests/testthat/test-1_ct_update_databases.R | 82 - tests/testthat/test-ct_commodity_db_type.R | 10 tests/testthat/test-ct_commodity_lookup.R | 162 +- tests/testthat/test-ct_country_lookup.R | 102 - tests/testthat/test-ct_get_remaining_hourly_queries.R | 10 tests/testthat/test-ct_get_reset_time.R | 10 tests/testthat/test-ct_register_token.R | 56 tests/testthat/test-ct_search.R | 448 +++---- tests/testthat/test-ct_use_pretty_cols.R | 54 vignettes/comtradr-vignette.Rmd | 616 +++++----- 41 files changed, 3933 insertions(+), 3925 deletions(-)
Title: Visualisation of High-Throughput Behavioural (i.e. Ethomics)
Data
Description: Extension of 'ggplot2' providing layers, scales and preprocessing functions
useful to represent behavioural variables that are recorded over multiple animals and days.
This package is part of the rethomics framework <http://rethomics.github.io/>.
Author: Quentin Geissmann [aut, cre]
Maintainer: Quentin Geissmann <qgeissmann@gmail.com>
Diff between ggetho versions 0.3.3 dated 2018-09-15 and 0.3.4 dated 2018-10-05
DESCRIPTION | 8 ++++---- MD5 | 22 ++++++++++++---------- NAMESPACE | 1 + R/ggperio.R | 3 ++- R/ggspectro.R |only R/scale-aaaaa.R | 1 + R/scale-days.R | 20 +++++++++++--------- R/scale-hours.R | 18 +++++++++++------- R/scale-seconds.R | 18 +++++++++++------- man/ggperio.Rd | 3 ++- man/ggspectro.Rd |only man/time_scales.Rd | 14 ++++++++------ tests/testthat/test-scales.R | 18 ++++++++++++++++-- 13 files changed, 79 insertions(+), 47 deletions(-)