Title: The 'jamovi' Analyses
Description: 'jamovi' is a rich graphical statistics program providing many
common statistical tests such as t-tests, ANOVAs, correlation matrices,
proportion tests, contingency tables, etc (see <https://www.jamovi.org> for
more information). This package makes all of the basic 'jamovi' analyses
available to the R user.
Author: Ravi Selker, Jonathon Love, Damian Dropmann
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmv versions 0.7.3.0 dated 2017-04-28 and 0.7.3.1 dated 2017-05-09
DESCRIPTION | 12 - MD5 | 102 ++++++++------- NAMESPACE | 1 R/ancova.b.R | 11 + R/ancova.h.R | 35 +++-- R/anova.b.R | 2 R/anova.h.R | 2 R/anovanp.h.R | 15 ++ R/anovarm.b.R | 17 ++ R/anovarm.h.R | 45 +++++- R/anovarmnp.h.R | 13 + R/conttables.h.R | 2 R/corrmatrix.h.R | 25 +++ R/data.R |only R/descriptives.h.R | 36 +++++ R/efa.h.R | 93 ++++++-------- R/linreg.b.R | 10 - R/linreg.h.R | 71 +++++----- R/mancova.b.R | 48 +++---- R/mancova.h.R | 174 ++++++++++++-------------- R/pca.b.R | 2 R/pca.h.R | 76 +++++------ R/proptest2.h.R | 15 ++ R/reliability.b.R | 256 ++++++++++++++++++++++++++------------- R/reliability.h.R | 56 ++++++-- R/ttestis.h.R | 14 +- R/ttestones.h.R | 16 +- R/ttestps.h.R | 23 +-- R/utils.R |only data |only man/ancova.Rd | 19 ++ man/anova.Rd | 2 man/anovaNP.Rd | 15 ++ man/anovaRM.Rd | 45 +++++- man/anovaRMNP.Rd | 13 + man/bugs.Rd |only man/contTables.Rd | 2 man/corrMatrix.Rd | 25 +++ man/descriptives.Rd | 36 +++++ man/efa.Rd | 41 ++---- man/linReg.Rd | 15 +- man/mancova.Rd | 29 +--- man/pca.Rd | 20 +-- man/propTest2.Rd | 15 ++ man/reliability.Rd | 22 ++- man/ttestIS.Rd | 14 +- man/ttestOneS.Rd | 16 +- man/ttestPS.Rd | 23 +-- tests/testthat/testanova.R | 18 ++ tests/testthat/testanovarm.R | 8 + tests/testthat/testefa.R | 7 - tests/testthat/testlinreg.R | 12 - tests/testthat/testmancova.R | 10 - tests/testthat/testreliability.R | 21 +-- 54 files changed, 1012 insertions(+), 588 deletions(-)
Title: Manage Cached Files
Description: Suite of tools for managing cached files, targeting
use in other R packages. Uses 'rappdirs' for cross-platform paths.
Provides utilities to manage cache directories, including targeting
files by path or by key; cached directories can be compressed and
uncompressed easily to save disk space.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between hoardr versions 0.1.0 dated 2017-04-21 and 0.2.0 dated 2017-05-09
DESCRIPTION | 8 +- MD5 | 28 ++++----- NAMESPACE | 2 NEWS.md | 17 ++++++ R/hoard-package.R | 8 ++ R/hoard_client.R | 107 +++++++++++++++++++++++++++++--------- README.md | 17 +++--- build/vignette.rds |binary inst/doc/hoardr_vignette.R | 2 inst/doc/hoardr_vignette.Rmd | 10 +-- inst/doc/hoardr_vignette.html | 36 ++++++------ man/hoard.Rd | 79 ++++++++++++++++++++++------ man/hoardr-package.Rd | 7 ++ tests/testthat/test-HoardClient.R | 12 +++- vignettes/hoardr_vignette.Rmd | 10 +-- 15 files changed, 248 insertions(+), 95 deletions(-)
Title: Provides a GUI to Several Statistical Methods
Description: Using Java GUI for R (JGR), CADStat provides a user
interface for several statistical methods -
scatterplot, boxplot, linear regression, generalized linear
regression, quantile regression, conditional probability
calculations, and regression trees.
Author: Lester Yuan, Tom Stockton, Doug Bronson, Pasha Minallah, and
Mark Fitzgerald
Maintainer: David Rebhuhn <rebhuhn.david@epa.gov>
Diff between CADStat versions 3.0.7 dated 2017-04-17 and 3.0.8 dated 2017-05-09
DESCRIPTION | 11 ++-- MD5 | 42 +++++++++--------- NEWS | 5 +- R/CADStat.help.R | 54 ++++++++++++++++++++---- R/glm.JGR.R | 6 +- R/scatterplot2.JGR.R | 39 ++++++++++++----- inst/doc/CADStat.JGR.html | 4 - inst/doc/bioinfer.JGR.html | 2 inst/doc/boxplot.JGR.html | 4 - inst/doc/conditionalprob.JGR.html | 6 +- inst/doc/cor.JGR.html | 6 +- inst/doc/glm.pred.JGR.html | 10 ++-- inst/doc/lm.JGR.html | 4 - inst/doc/loaddata.JGR.html | 12 ++--- inst/doc/pca.fa.JGR.html | 2 inst/doc/rpart.JGR.html | 6 +- inst/doc/rq.JGR.html | 6 +- inst/doc/scatterplot.JGR.html | 10 +--- inst/doc/trait.stat.JGR.html | 2 inst/java/cadstat.jar |binary java/CADStat.java/plots/BxPlot.java | 2 java/CADStat.java/prefs/PreferencesManager.java | 5 +- 22 files changed, 150 insertions(+), 88 deletions(-)
Title: 'surv' Object Confidence Bands Optimized by Area
Description: Given a certain coverage level, obtains simultaneous confidence
bands for the survival and cumulative hazard functions such that the area
between is minimized. Produces an approximate solution based on local time
arguments.
Author: Tom Chen & Sam Tracy
Maintainer: Sam Tracy <stracy@g.harvard.edu>
Diff between optband versions 0.1 dated 2016-08-27 and 0.2.1 dated 2017-05-09
DESCRIPTION | 10 - MD5 | 30 +++-- NAMESPACE | 2 R/package_functions.R | 248 +++++++++++++++++++++++++++++++++++-------------- README.md |only build/vignette.rds |binary inst/doc/optci.R | 12 ++ inst/doc/optci.Rmd | 27 +++-- inst/doc/optci.html | 39 ++++--- man/cumhaz.var.Rd | 8 + man/func.sum.Rd |only man/modify.surv.fun.Rd | 7 + man/opt.ci.Rd | 13 ++ man/psi.Rd | 8 - man/riemsum.Rd | 6 - man/surv.range.Rd | 14 +- vignettes/optci.Rmd | 27 +++-- 17 files changed, 327 insertions(+), 124 deletions(-)
Title: Construct, Evaluate and Plot Value and Utility Functions
Description: Construct and plot objective hierarchies and associated value and utility functions.
Evaluate the values and utilities and visualize the results as colored objective hierarchies or tables.
Visualize uncertainty by plotting median and quantile intervals within the nodes of objective hierarchies.
Get numerical results of the evaluations in standard R data types for further processing.
Author: Peter Reichert <peter.reichert@eawag.ch>
with contributions by Nele Schuwirth <nele.schuwirth@eawag.ch>
Maintainer: Peter Reichert <peter.reichert@eawag.ch>
Diff between utility versions 1.4 dated 2017-01-15 and 1.4.1 dated 2017-05-09
DESCRIPTION | 8 ++--- MD5 | 38 ++++++++++++++-------------- R/utility.plot.r | 13 +++++++-- inst/NEWS |only inst/utility_manual_plots.r |only man/figures/aggregationadd.pdf |binary man/figures/aggregationaddmin.pdf |binary man/figures/aggregationaddpower.pdf |binary man/figures/aggregationaddsplitpower.pdf | 4 +- man/figures/aggregationbonusmalus.pdf |binary man/figures/aggregationgeo.pdf | 4 +- man/figures/aggregationharmo.pdf | 4 +- man/figures/aggregationmax.pdf |binary man/figures/aggregationmin.pdf |binary man/figures/aggregationmix.pdf | 4 +- man/figures/aggregationmult.pdf |binary man/figures/aggregationrevaddpower.pdf | 4 +- man/figures/aggregationrevaddsplitpower.pdf |binary man/figures/aggregationrevgeo.pdf | 4 +- man/figures/aggregationrevharmo.pdf | 4 +- man/utility-package.Rd | 4 +- 21 files changed, 50 insertions(+), 41 deletions(-)
Title: Load Census TIGER/Line Shapefiles into R
Description: Download TIGER/Line shapefiles from the United States Census Bureau
and load into R as 'SpatialDataFrame' or 'sf' objects.
Author: Kyle Walker [aut, cre],
Bob Rudis [ctb]
Maintainer: Kyle Walker <kyle.walker@tcu.edu>
Diff between tigris versions 0.5 dated 2017-05-01 and 0.5.1 dated 2017-05-09
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 8 +++++++- R/enumeration_units.R | 49 +++++++++++++++++++++++++++++++++++-------------- R/zzz.R | 6 +++++- README.md | 10 ++++++---- 6 files changed, 62 insertions(+), 29 deletions(-)
More information about shinycssloaders at CRAN
Permanent link
Title: Tide Heights
Description: Calculates tide heights based on tide station harmonics.
It includes the harmonics data for 637 US stations.
The harmonics data was converted from <ftp://ftp.flaterco.com/xtide/harmonics-dwf-20151227-free.tar.bz2>,
which is NOAA web site data processed by David Flater for XTide.
The code to calculate tide heights from the harmonics is based on XTide.
Author: Joe Thorley [aut, cre],
Abram Fleishman [aut],
Luke Miller [aut]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between rtide versions 0.0.3 dated 2016-12-22 and 0.0.4 dated 2017-05-09
rtide-0.0.3/rtide/LICENSE |only rtide-0.0.4/rtide/DESCRIPTION | 24 ++++++----- rtide-0.0.4/rtide/MD5 | 32 +++++++-------- rtide-0.0.4/rtide/NEWS.md | 4 + rtide-0.0.4/rtide/R/data.R | 2 rtide-0.0.4/rtide/R/tide-harmonics.R | 8 +-- rtide-0.0.4/rtide/R/tide-height.R | 11 ++--- rtide-0.0.4/rtide/README.md | 4 - rtide-0.0.4/rtide/man/brandywine.Rd | 1 rtide-0.0.4/rtide/man/harmonics.Rd | 3 - rtide-0.0.4/rtide/man/is.tide_harmonics.Rd | 1 rtide-0.0.4/rtide/man/monterey.Rd | 1 rtide-0.0.4/rtide/man/tide_datetimes.Rd | 1 rtide-0.0.4/rtide/man/tide_height.Rd | 1 rtide-0.0.4/rtide/man/tide_height_data.Rd | 1 rtide-0.0.4/rtide/man/tide_stations.Rd | 1 rtide-0.0.4/rtide/tests/testthat/test-tide-height-data.R | 10 +--- rtide-0.0.4/rtide/tools |only 18 files changed, 49 insertions(+), 56 deletions(-)
Title: Data Frames in R for Make
Description: A solution for reproducible code and
high-performance computing.
Author: William Michael Landau [aut, cre],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@lilly.com>
Diff between drake versions 2.1.1 dated 2017-04-14 and 3.0.0 dated 2017-05-09
drake-2.1.1/drake/inst/logo.md |only drake-2.1.1/drake/vignettes/logo.png |only drake-3.0.0/drake/DESCRIPTION | 16 drake-3.0.0/drake/MD5 | 113 + drake-3.0.0/drake/NAMESPACE | 1 drake-3.0.0/drake/R/Makefile.R | 12 drake-3.0.0/drake/R/build.R | 14 drake-3.0.0/drake/R/cache.R | 1 drake-3.0.0/drake/R/check.R | 3 drake-3.0.0/drake/R/clean.R | 2 drake-3.0.0/drake/R/config.R | 22 drake-3.0.0/drake/R/debug.R | 7 drake-3.0.0/drake/R/deprecate.R | 4 drake-3.0.0/drake/R/envir.R | 2 drake-3.0.0/drake/R/examples.R | 2 drake-3.0.0/drake/R/graph.R | 37 drake-3.0.0/drake/R/lapply.R | 4 drake-3.0.0/drake/R/make.R | 6 drake-3.0.0/drake/R/mclapply.R | 4 drake-3.0.0/drake/R/parLapply.R | 38 drake-3.0.0/drake/R/parallel.R | 9 drake-3.0.0/drake/R/plan.R | 16 drake-3.0.0/drake/R/read.R | 15 drake-3.0.0/drake/R/status.R | 12 drake-3.0.0/drake/R/test.R | 5 drake-3.0.0/drake/R/timestamp.R | 6 drake-3.0.0/drake/build/vignette.rds |binary drake-3.0.0/drake/inst/doc/caution.R | 21 drake-3.0.0/drake/inst/doc/caution.Rmd | 81 + drake-3.0.0/drake/inst/doc/caution.html | 364 ++---- drake-3.0.0/drake/inst/doc/drake.Rmd | 33 drake-3.0.0/drake/inst/doc/drake.html | 331 +---- drake-3.0.0/drake/inst/doc/quickstart.R | 6 drake-3.0.0/drake/inst/doc/quickstart.Rmd | 17 drake-3.0.0/drake/inst/doc/quickstart.html | 906 +++++----------- drake-3.0.0/drake/inst/examples/basic/basic.R | 13 drake-3.0.0/drake/inst/logo.png |only drake-3.0.0/drake/man/build_graph.Rd | 5 drake-3.0.0/drake/man/check.Rd | 2 drake-3.0.0/drake/man/example_drake.Rd | 2 drake-3.0.0/drake/man/make.Rd | 6 drake-3.0.0/drake/man/plot_graph.Rd | 5 drake-3.0.0/drake/man/possible_targets.Rd |only drake-3.0.0/drake/man/readd.Rd | 4 drake-3.0.0/drake/man/status.Rd | 12 drake-3.0.0/drake/man/tracked.Rd | 3 drake-3.0.0/drake/tests/testthat/test-Makefile.R | 10 drake-3.0.0/drake/tests/testthat/test-cache.R | 75 - drake-3.0.0/drake/tests/testthat/test-command-changes.R | 5 drake-3.0.0/drake/tests/testthat/test-edge-cases.R | 38 drake-3.0.0/drake/tests/testthat/test-envir.R | 1 drake-3.0.0/drake/tests/testthat/test-full-build.R | 29 drake-3.0.0/drake/tests/testthat/test-import-file.R | 4 drake-3.0.0/drake/tests/testthat/test-import-object.R | 23 drake-3.0.0/drake/tests/testthat/test-other-features.R | 13 drake-3.0.0/drake/tests/testthat/test-plan.R | 48 drake-3.0.0/drake/vignettes/caution.Rmd | 81 + drake-3.0.0/drake/vignettes/drake.Rmd | 33 drake-3.0.0/drake/vignettes/logo-small.png |only drake-3.0.0/drake/vignettes/quickstart.Rmd | 17 60 files changed, 1152 insertions(+), 1387 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-20 0.1.1
2017-02-08 0.1
Title: Quantitative Analysis Made Accessible
Description: Contains a number of functions that serve
two goals. First, to make R more accessible to people migrating from
SPSS by adding a number of functions that behave roughly like their
SPSS equivalents. Second, to make a number of slightly more
advanced functions more user friendly to relatively novice users. The
package also conveniently houses a number of additional functions that
are intended to increase the quality of methodology and statistics in
psychology, not by offering technical solutions, but by shifting
perspectives, for example towards reasoning based on sampling
distributions as opposed to on point estimates.
Author: Gjalt-Jorn Peters
Maintainer: Gjalt-Jorn Peters <gjalt-jorn@userfriendlyscience.com>
Diff between userfriendlyscience versions 0.6-0 dated 2017-04-03 and 0.6-1 dated 2017-05-09
DESCRIPTION | 8 - MD5 | 71 +++++++++-------- NAMESPACE | 6 - NEWS | 8 + R/CIBER.R | 6 - R/areColors.R |only R/associationMatrix.R | 106 ++++++++++++------------- R/associationsDiamondPlot.R | 158 ++++++++++++++++++++++++++++++++++---- R/associationsToDiamondPlotDf.R | 11 ++ R/biAxisDiamondPlot.R | 29 +++++- R/confIntR.R | 2 R/detStructCIBER.R | 4 R/diamondPlot.R | 42 +++++++--- R/duoComparisonDiamondPlot.R |only R/ggConfidenceCurve.R |only R/ggDiamondLayer.R | 9 ++ R/meanSDtoDiamondPlot.R | 29 +++++- R/meansComparisonDiamondPlot.R |only R/meansDiamondPlot.R | 34 +++++++- R/processLimeSurveyDropouts.R |only R/pwr.cohensdCI.R | 14 +-- R/rawDataDiamondLayer.R | 2 R/setCaptionNumbering.R | 9 +- R/setFigCapNumbering.R | 9 +- R/setTabCapNumbering.R | 6 - README.md | 2 inst/CITATION | 10 ++ man/CIBER.Rd | 4 man/areColors.Rd |only man/associationsDiamondPlot.Rd | 90 +++++++++++++++++---- man/biAxisDiamondPlot.Rd | 22 ++++- man/confIntR.Rd | 2 man/diamondPlot.Rd | 15 +++ man/ggConfidenceCurve.Rd |only man/ggDiamondLayer.Rd | 2 man/meanSDtoDiamondPlot.Rd | 21 ++++- man/meansComparisonDiamondPlot.Rd |only man/meansDiamondPlot.Rd | 25 +++++- man/processLimeSurveyDropouts.Rd |only man/setCaptionNumbering.Rd | 6 + man/setFigCapNumbering.Rd | 9 +- 41 files changed, 588 insertions(+), 183 deletions(-)
More information about userfriendlyscience at CRAN
Permanent link
Title: Test Functions for Simulation Experiments and Evaluating
Optimization and Emulation Algorithms
Description: Test functions are often used to test computer code.
They are used in optimization to test algorithms and in
metamodeling to evaluate model predictions. This package provides
test functions that can be used for any purpose.
Some functions are taken from <https://www.sfu.ca/~ssurjano>, but
their R code is not used.
Author: Collin Erickson
Maintainer: Collin Erickson <collinberickson@gmail.com>
Diff between TestFunctions versions 0.1.0 dated 2016-09-26 and 0.2.0 dated 2017-05-09
DESCRIPTION | 10 MD5 | 67 ++- NAMESPACE | 52 ++ NEWS.md |only R/RFF.R | 4 R/add_linear_terms.R |only R/add_noise.R |only R/add_null_dims.R |only R/add_zoom.R |only R/derivatives.R |only R/functions1.R | 835 ++++++++++++++++++++++++++++++++++++++++-- R/test_func_apply.R | 2 README.md | 10 build |only inst |only man/RFF.Rd | 1 man/RFF_get.Rd | 5 man/TF_Gfunction.Rd |only man/TF_GoldsteinPrice.Rd |only man/TF_GoldsteinPriceLog.Rd |only man/TF_OTL_Circuit.Rd | 15 man/TF_RoosArnold.Rd |only man/TF_ackley.Rd |only man/TF_beale.Rd |only man/TF_detpep8d.Rd |only man/TF_easom.Rd |only man/TF_griewank.Rd |only man/TF_hartmann.Rd |only man/TF_hump.Rd |only man/TF_levy.Rd |only man/TF_linkletter_nosignal.Rd |only man/TF_michalewicz.Rd |only man/TF_moon_high.Rd |only man/TF_morris.Rd |only man/TF_piston.Rd |only man/TF_quad_peaks.Rd |only man/TF_quad_peaks_slant.Rd |only man/TF_rastrigin.Rd |only man/TF_robotarm.Rd |only man/TF_welch.Rd |only man/TF_wingweight.Rd |only man/add_linear_terms.Rd |only man/add_noise.Rd |only man/add_null_dims.Rd |only man/add_zoom.Rd |only man/nsin.Rd | 1 man/numGrad.Rd |only man/numHessian.Rd |only man/standard_test_func.Rd | 1 man/test_func_apply.Rd | 268 ++++++++++++- tools |only vignettes |only 52 files changed, 1192 insertions(+), 79 deletions(-)
Title: Stacked Species Distribution Modelling
Description: Allows to map species richness and endemism based on stacked
species distribution models (SSDM). Individuals SDMs can be created using a
single or multiple algorithms (ensemble SDMs). For each species, an SDM can
yield a habitat suitability map, a binary map, a between-algorithm variance
map, and can assess variable importance, algorithm accuracy, and between-
algorithm correlation. Methods to stack individual SDMs include summing
individual probabilities and thresholding then summing. Thresholding can be
based on a specific evaluation metric or by drawing repeatedly from a Bernoulli
distribution. The SSDM package also provides a user-friendly interface.
Author: Sylvain Schmitt, Robin Pouteau, Dimitri Justeau, Florian de Boissieu, Philippe Birnbaum
Maintainer: Sylvain Schmitt <sylvain.schmitt@agroparistech.fr>
Diff between SSDM versions 0.2.1 dated 2017-03-22 and 0.2.3 dated 2017-05-09
SSDM-0.2.1/SSDM/inst/extdata/Occurences.txt |only SSDM-0.2.3/SSDM/DESCRIPTION | 11 + SSDM-0.2.3/SSDM/MD5 | 91 +++++++++------ SSDM-0.2.3/SSDM/NEWS.md | 26 ++++ SSDM-0.2.3/SSDM/R/Ensemble.SDM.R | 2 SSDM-0.2.3/SSDM/R/Env.R | 4 SSDM-0.2.3/SSDM/R/Occurrences.R | 4 SSDM-0.2.3/SSDM/R/SSDM.R | 17 +- SSDM-0.2.3/SSDM/R/ensemble.R | 23 +-- SSDM-0.2.3/SSDM/R/ensemble_modelling.R | 138 ++++++++++++----------- SSDM-0.2.3/SSDM/R/gui.R | 6 - SSDM-0.2.3/SSDM/R/load_model.R | 8 - SSDM-0.2.3/SSDM/R/load_occ.R | 21 +-- SSDM-0.2.3/SSDM/R/load_var.R | 4 SSDM-0.2.3/SSDM/R/mapDiversity.R | 14 +- SSDM-0.2.3/SSDM/R/modelling.R | 18 +-- SSDM-0.2.3/SSDM/R/stack_modelling.R | 18 +-- SSDM-0.2.3/SSDM/R/stacking.R | 2 SSDM-0.2.3/SSDM/R/update.stack.R | 6 - SSDM-0.2.3/SSDM/README.md | 2 SSDM-0.2.3/SSDM/build |only SSDM-0.2.3/SSDM/inst/doc |only SSDM-0.2.3/SSDM/inst/extdata/Occurrences.csv |only SSDM-0.2.3/SSDM/inst/shiny/gui/server.R | 6 - SSDM-0.2.3/SSDM/inst/shiny/gui/ui.R | 3 SSDM-0.2.3/SSDM/man/Ensemble.SDM-class.Rd | 2 SSDM-0.2.3/SSDM/man/Env.Rd | 4 SSDM-0.2.3/SSDM/man/Occurrences.Rd | 4 SSDM-0.2.3/SSDM/man/SSDM.Rd | 17 +- SSDM-0.2.3/SSDM/man/ensemble.Rd | 23 +-- SSDM-0.2.3/SSDM/man/ensemble_modelling.Rd | 132 +++++++++++----------- SSDM-0.2.3/SSDM/man/gui.Rd | 4 SSDM-0.2.3/SSDM/man/load.model.Rd | 8 - SSDM-0.2.3/SSDM/man/load_occ.Rd | 21 +-- SSDM-0.2.3/SSDM/man/load_var.Rd | 4 SSDM-0.2.3/SSDM/man/mapDiversity.Rd | 8 - SSDM-0.2.3/SSDM/man/modelling.Rd | 18 +-- SSDM-0.2.3/SSDM/man/stack_modelling.Rd | 18 +-- SSDM-0.2.3/SSDM/man/stacking.Rd | 2 SSDM-0.2.3/SSDM/man/update-Stacked.SDM-method.Rd | 6 - SSDM-0.2.3/SSDM/vignettes |only 41 files changed, 366 insertions(+), 329 deletions(-)
Title: Test Metric and Null Model Statistical Performance
Description: Explore the behavior and statistical performance of 13 pre-defined
phylogenetic metrics and 11 null models, and of user-defined metrics
and null models, as detailed in Miller et al. (2017) <doi:10.1111/ecog.02070>.
Author: Eliot Miller, Chris Trisos & Damien Farine
Maintainer: Eliot Miller <eliot.isaac@gmail.com>
Diff between metricTester versions 1.3.2 dated 2017-02-16 and 1.3.3 dated 2017-05-09
DESCRIPTION | 15 ++-- MD5 | 164 ++++++++++++++++++++++---------------------- NEWS.md | 4 + R/dispersalNull.R | 2 R/sesField.R | 4 - man/FDis.Rd | 1 man/MRD.Rd | 1 man/abundanceVector.Rd | 1 man/alphaMetricSims.Rd | 1 man/arenaTest.Rd | 1 man/betaErrorChecker.Rd | 1 man/betaErrorWrapper.Rd | 1 man/betaLinker.Rd | 1 man/betaMetricSims.Rd | 1 man/betaMetricsNnulls.Rd | 1 man/betaMultiLinker.Rd | 1 man/calcBetaMetrics.Rd | 1 man/calcField.Rd | 1 man/calcMetrics.Rd | 1 man/centers.Rd | 1 man/checkBetaMetrics.Rd | 1 man/checkCDM.Rd | 1 man/checkMetrics.Rd | 1 man/checkNulls.Rd | 1 man/checkSimulations.Rd | 1 man/competitionArena.Rd | 1 man/defineBetaMetrics.Rd | 1 man/defineMetrics.Rd | 1 man/defineNulls.Rd | 1 man/defineSimulations.Rd | 1 man/dispersalNull.Rd | 3 man/distMRCA.Rd | 1 man/errorChecker.Rd | 1 man/evolveTraits.Rd | 1 man/expectations.Rd | 1 man/filteringArena.Rd | 1 man/killSome.Rd | 1 man/killSomeBig.Rd | 1 man/lengthNonZeros.Rd | 1 man/linker.Rd | 1 man/makeCDM.Rd | 1 man/makeRoadMap.Rd | 1 man/metricPerformance.Rd | 1 man/metricsNnulls.Rd | 1 man/modifiedMPD.Rd | 1 man/multiCDM.Rd | 1 man/multiLinker.Rd | 1 man/newRegionalNull.Rd | 1 man/nullPerformance.Rd | 1 man/observedBetaMetrics.Rd | 1 man/observedMetrics.Rd | 1 man/oldRegionalNull.Rd | 1 man/phyloField.Rd | 1 man/plotContents.Rd | 1 man/plotOverall.Rd | 1 man/plotPlacer.Rd | 1 man/plotPlotter.Rd | 1 man/plotTest.Rd | 1 man/prepData.Rd | 1 man/prepFieldData.Rd | 1 man/prepNulls.Rd | 1 man/prepSimulations.Rd | 1 man/pscCorr.Rd | 1 man/randomArena.Rd | 1 man/readIn.Rd | 1 man/reduceRandomizations.Rd | 1 man/reduceResults.Rd | 1 man/relativeCDM.Rd | 1 man/runNulls.Rd | 1 man/runSimulations.Rd | 1 man/sesField.Rd | 1 man/sesIndiv.Rd | 1 man/sesOverall.Rd | 1 man/sesPhyloField.Rd | 1 man/sesTraitField.Rd | 1 man/settleSome.Rd | 1 man/simulateComm.Rd | 1 man/summCorrs.Rd | 1 man/summaries.Rd | 1 man/synthComm.Rd | 1 man/traitField.Rd | 1 man/varLandscape.Rd | 1 man/varyX.Rd | 1 83 files changed, 98 insertions(+), 171 deletions(-)
Title: Fitting, Diagnostics, and Plotting Functions for Infinite
Mixtures of Infinite Factor Analysers and Related Models
Description: Provides flexible Bayesian estimation of Infinite Mixtures of Infinite Factor Analysers and related models, for nonparametrically clustering high-dimensional data, introduced by Murphy et al. (2017) <https://arxiv.org/abs/1701.07010>. The IMIFA model conducts Bayesian nonparametric model-based clustering with factor analytic covariance structures without recourse to model selection criteria to choose the number of clusters or cluster-specific latent factors, mostly via efficient Gibbs updates. Model-specific diagnostic tools are also provided, as well as many options for plotting results and conducting posterior inference on parameters of interest.
Author: Keefe Murphy [aut, cre],
Isobel Claire Gormley [ctb],
Cinzia Viroli [ctb]
Maintainer: Keefe Murphy <keefe.murphy@ucd.ie>
Diff between IMIFA versions 1.1.0 dated 2017-02-05 and 1.2.0 dated 2017-05-09
IMIFA-1.1.0/IMIFA/man/G_prior.Rd |only IMIFA-1.1.0/IMIFA/vignettes/resIMIFA.rda |only IMIFA-1.2.0/IMIFA/DESCRIPTION | 23 IMIFA-1.2.0/IMIFA/MD5 | 79 IMIFA-1.2.0/IMIFA/NAMESPACE | 15 IMIFA-1.2.0/IMIFA/R/Diagnostics.R | 557 +++-- IMIFA-1.2.0/IMIFA/R/FullConditionals.R | 481 +++- IMIFA-1.2.0/IMIFA/R/Gibbs_FA.R | 91 IMIFA-1.2.0/IMIFA/R/Gibbs_IFA.R | 134 - IMIFA-1.2.0/IMIFA/R/Gibbs_IMFA.R | 307 +- IMIFA-1.2.0/IMIFA/R/Gibbs_IMIFA.R | 447 ++-- IMIFA-1.2.0/IMIFA/R/Gibbs_MFA.R | 137 - IMIFA-1.2.0/IMIFA/R/Gibbs_MIFA.R | 305 +- IMIFA-1.2.0/IMIFA/R/Gibbs_OMFA.R | 149 - IMIFA-1.2.0/IMIFA/R/Gibbs_OMIFA.R | 274 +- IMIFA-1.2.0/IMIFA/R/IMIFA.R | 15 IMIFA-1.2.0/IMIFA/R/MainFunction.R | 445 ++-- IMIFA-1.2.0/IMIFA/R/PlottingFunctions.R | 1106 ++++++---- IMIFA-1.2.0/IMIFA/R/SimulateData.R | 39 IMIFA-1.2.0/IMIFA/R/data.R | 4 IMIFA-1.2.0/IMIFA/README.md | 37 IMIFA-1.2.0/IMIFA/build/vignette.rds |binary IMIFA-1.2.0/IMIFA/inst/doc/IMIFA.R | 38 IMIFA-1.2.0/IMIFA/inst/doc/IMIFA.Rmd | 91 IMIFA-1.2.0/IMIFA/inst/doc/IMIFA.html | 111 - IMIFA-1.2.0/IMIFA/man/G_expected.Rd | 8 IMIFA-1.2.0/IMIFA/man/G_priorDensity.Rd |only IMIFA-1.2.0/IMIFA/man/G_variance.Rd | 10 IMIFA-1.2.0/IMIFA/man/IMIFA.Rd | 23 IMIFA-1.2.0/IMIFA/man/MGP_check.Rd | 31 IMIFA-1.2.0/IMIFA/man/PGMM_dfree.Rd |only IMIFA-1.2.0/IMIFA/man/Zsimilarity.Rd |only IMIFA-1.2.0/IMIFA/man/coffee.Rd | 3 IMIFA-1.2.0/IMIFA/man/get_IMIFA_results.Rd | 37 IMIFA-1.2.0/IMIFA/man/gumbel_max.Rd |only IMIFA-1.2.0/IMIFA/man/heat_legend.Rd |only IMIFA-1.2.0/IMIFA/man/mat2cols.Rd | 24 IMIFA-1.2.0/IMIFA/man/mcmc_IMIFA.Rd | 98 IMIFA-1.2.0/IMIFA/man/olive.Rd | 3 IMIFA-1.2.0/IMIFA/man/plot.Results_IMIFA.Rd | 79 IMIFA-1.2.0/IMIFA/man/psi_hyper.Rd | 11 IMIFA-1.2.0/IMIFA/man/rDirichlet.Rd |only IMIFA-1.2.0/IMIFA/man/sim_IMIFA_data.Rd | 13 IMIFA-1.2.0/IMIFA/vignettes/IMIFA.Rmd | 91 IMIFA-1.2.0/IMIFA/vignettes/res_olive_IMIFA__Edited-Vignette-only-Version.rda |only 45 files changed, 3151 insertions(+), 2165 deletions(-)
Title: Perform Common Quantitative Tasks for Australian Analysts and to
Support Grattan Institute Analysis
Description: A series of functions focused on costing and evaluating Australian tax policy in support of the Grattan Institute's Australian Perspectives program. For access to the taxstats package, please run install.packages("taxstats", repos = "https://hughparsonage.github.io/drat/", type = "source"). N.B. The taxstats package is approximately 50 MB.
Author: Hugh Parsonage [aut, cre],
Tim Cameron [aut],
Brendan Coates [aut],
William Young [aut],
Ittima Cherastidtham [dtc]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between grattan versions 1.4.1.2 dated 2017-03-04 and 1.5.0.0 dated 2017-05-09
DESCRIPTION | 8 ++-- MD5 | 43 +++++++++++++------------ R/cpi_inflator.R | 4 +- R/generic_inflator.R | 13 +++---- R/income_tax.R | 9 ++--- R/lf_inflator.R | 1 R/new_income_tax.R | 9 ++--- R/residential_property_prices.R |only R/student_repayment.R | 4 +- R/sysdata.rda |binary R/utils.R | 6 ++- build/vignette.rds |binary data/residential_property_prices.rda |only inst/doc/Modelling-superannuation-changes.html | 20 +++++------ inst/doc/Performance-of-project.html | 6 +-- inst/doc/companion-to-sample-file-1314.html | 6 +-- inst/doc/differential-uprating.html | 4 +- man/income_tax.Rd | 7 ++-- man/residential_property_prices.Rd |only man/student_repayment.Rd | 6 ++- tests/testthat.R | 32 +++++++++++------- tests/testthat/test_incometax_single.R | 3 + tests/testthat/test_lf_inflator.R | 3 + tests/testthat/test_sapto.R | 5 ++ 24 files changed, 107 insertions(+), 82 deletions(-)
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors. The package has been developed and tested for binary data from GENEActiv and GENEA devices, .csv-export data from Actigraph devices, and .cwa and .wav-format data from Axivity. These devices are currently widely used in research on human daily physical activity.
Author: Vincent T van Hees [aut, cre],
Zhou Fang [ctb],
Jing Hua Zhao [ctb],
Joe Heywood [ctb],
Evgeny Mirkes [ctb],
Severine Sabia [ctb]
Maintainer: Vincent T van Hees <vincentvanhees@gmail.com>
Diff between GGIR versions 1.5-3 dated 2017-04-28 and 1.5-7 dated 2017-05-09
GGIR-1.5-3/GGIR/R/CLS_time.R |only GGIR-1.5-3/GGIR/src/GGIR.h |only GGIR-1.5-7/GGIR/DESCRIPTION | 13 GGIR-1.5-7/GGIR/MD5 | 90 ++- GGIR-1.5-7/GGIR/NAMESPACE | 20 GGIR-1.5-7/GGIR/R/g.analyse.R | 5 GGIR-1.5-7/GGIR/R/g.create.sp.mat.R | 157 ++--- GGIR-1.5-7/GGIR/R/g.cwaread.R | 4 GGIR-1.5-7/GGIR/R/g.detecmidnight.R | 84 +- GGIR-1.5-7/GGIR/R/g.getmeta.R | 29 GGIR-1.5-7/GGIR/R/g.impute.R | 2 GGIR-1.5-7/GGIR/R/g.part1.R | 2 GGIR-1.5-7/GGIR/R/g.part2.R | 2 GGIR-1.5-7/GGIR/R/g.readaccfile.R | 16 GGIR-1.5-7/GGIR/R/g.report.part2.R | 2 GGIR-1.5-7/GGIR/R/g.report.part4.R | 746 ++++++++++++------------- GGIR-1.5-7/GGIR/R/g.report.part5.R | 4 GGIR-1.5-7/GGIR/R/g.shell.GGIR.R | 2 GGIR-1.5-7/GGIR/R/g.sib.det.R | 4 GGIR-1.5-7/GGIR/R/g.sib.plot.R | 202 +++--- GGIR-1.5-7/GGIR/R/getFirstTimestamp.R |only GGIR-1.5-7/GGIR/R/getStartEnd.R |only GGIR-1.5-7/GGIR/R/getStartEndNumeric.R |only GGIR-1.5-7/GGIR/README.md | 2 GGIR-1.5-7/GGIR/build/vignette.rds |binary GGIR-1.5-7/GGIR/inst/NEWS.Rd | 7 GGIR-1.5-7/GGIR/inst/doc/GGIR.R | 81 ++ GGIR-1.5-7/GGIR/inst/doc/GGIR.Rmd | 371 ++++++++++-- GGIR-1.5-7/GGIR/inst/doc/GGIR.html | 554 ++++++++++++++++-- GGIR-1.5-7/GGIR/man/GGIR-package.Rd | 4 GGIR-1.5-7/GGIR/man/POSIXtime2iso8601.Rd |only GGIR-1.5-7/GGIR/man/chartime2iso8601.Rd |only GGIR-1.5-7/GGIR/man/datadir2fnames.Rd |only GGIR-1.5-7/GGIR/man/g.abr.day.names.Rd |only GGIR-1.5-7/GGIR/man/g.applymetrics.Rd |only GGIR-1.5-7/GGIR/man/g.create.sp.mat.Rd |only GGIR-1.5-7/GGIR/man/g.createcoordinates.Rd |only GGIR-1.5-7/GGIR/man/g.detecmidnight.Rd |only GGIR-1.5-7/GGIR/man/g.dotorcomma.Rd |only GGIR-1.5-7/GGIR/man/g.downsample.Rd |only GGIR-1.5-7/GGIR/man/g.extractheadervars.Rd |only GGIR-1.5-7/GGIR/man/g.getM5L5.Rd |only GGIR-1.5-7/GGIR/man/g.getidfromheaderobject.Rd |only GGIR-1.5-7/GGIR/man/g.getstarttime.Rd |only GGIR-1.5-7/GGIR/man/g.loadlog.Rd |only GGIR-1.5-7/GGIR/man/g.metric.Rd |only GGIR-1.5-7/GGIR/man/g.plot5.Rd |only GGIR-1.5-7/GGIR/man/g.readaccfile.Rd |only GGIR-1.5-7/GGIR/man/g.report.part2.Rd |only GGIR-1.5-7/GGIR/man/g.report.part4.Rd |only GGIR-1.5-7/GGIR/man/g.report.part5.Rd |only GGIR-1.5-7/GGIR/man/g.sib.det.Rd |only GGIR-1.5-7/GGIR/man/g.sib.plot.Rd |only GGIR-1.5-7/GGIR/man/g.sib.sum.Rd |only GGIR-1.5-7/GGIR/man/g.weardec.Rd |only GGIR-1.5-7/GGIR/man/getFirstTimestamp.Rd |only GGIR-1.5-7/GGIR/man/getStartEnd.Rd |only GGIR-1.5-7/GGIR/man/getStartEndNumeric.Rd |only GGIR-1.5-7/GGIR/man/isfilelist.Rd |only GGIR-1.5-7/GGIR/man/iso8601chartime2POSIX.Rd |only GGIR-1.5-7/GGIR/man/numUnpack.Rd |only GGIR-1.5-7/GGIR/man/resample.Rd |only GGIR-1.5-7/GGIR/src/init.c | 29 GGIR-1.5-7/GGIR/vignettes/GGIR.Rmd | 371 ++++++++++-- GGIR-1.5-7/GGIR/vignettes/nonwearimage.jpg |only 65 files changed, 1983 insertions(+), 820 deletions(-)
Title: Robust Geostatistical Analysis of Spatial Data
Description: Provides functions for efficiently fitting linear models with
spatially correlated errors by robust and Gaussian (Restricted)
Maximum Likelihood and for computing robust and customary point
and block external-drift Kriging predictions, along with utility
functions for variogram modelling in ad hoc geostatistical analyses,
model building, model evaluation by cross-validation and for
unbiased back-transformation of Kriging predictions of
log-transformed data.
Author: Andreas Papritz [cre, aut],
Cornelia Schwierz [ctb]
Maintainer: Andreas Papritz <andreas.papritz@env.ethz.ch>
Diff between georob versions 0.3-3 dated 2017-01-24 and 0.3-4 dated 2017-05-09
ChangeLog | 12 ++++++++++ DESCRIPTION | 10 ++++---- MD5 | 24 ++++++++++----------- NEWS | 3 +- R/georob.exported.functions.R | 48 +++++++++++++++++++++++++++++++----------- R/georob.private.functions.R | 12 +++++++--- build/vignette.rds |binary inst/doc/georob_vignette.pdf |binary man/control.georob.Rd | 9 +++++-- man/georob-package.Rd | 10 ++++---- man/georob.Rd | 12 +++++----- man/predict.georob.Rd | 2 - man/profilelogLik.Rd | 2 - 13 files changed, 95 insertions(+), 49 deletions(-)
Title: Embedding Interactive Charts Generated with ECharts Library into
Shiny Applications
Description: Embed interactive charts to their Shiny applications. These charts will be generated by ECharts library developed by Baidu (<http://echarts.baidu.com/>). Current version supports line chart, bar chart, pie chart, scatter plot, gauge, word cloud, radar chart, tree map, and heat map.
Author: Xiaodong Deng [aut, cre],
Hao Zhu [ctr],
Yiheng Li [ctr],
Janet Wagner [ctr]
Maintainer: Xiaodong Deng <xd_deng@hotmail.com>
Diff between ECharts2Shiny versions 0.2.8 dated 2017-02-25 and 0.2.11 dated 2017-05-09
DESCRIPTION | 14 + MD5 | 50 +++--- NEWS | 8 + R/bar_chart.R | 312 +++++++++++++++++++-------------------- R/gauge.R | 4 R/heat_map.R | 4 R/internal_functions.R | 4 R/line_chart.R | 382 ++++++++++++++++++++++++------------------------ R/loadEChartsLibrary.R | 10 - R/loadEChartsTheme.R | 4 R/pie_chart.R | 306 +++++++++++++++++++------------------- R/radar_chart.R | 4 R/scatter.R | 372 +++++++++++++++++++++++----------------------- R/tree_map.R | 4 R/word_cloud.R | 268 ++++++++++++++++----------------- inst/caravan.js |only inst/dark-digerati.js |only inst/echarts.js | 78 +++++---- inst/jazz.js |only inst/london.js |only man/renderBarChart.Rd | 2 man/renderGauge.Rd | 2 man/renderHeatMap.Rd | 12 + man/renderLineChart.Rd | 2 man/renderPieChart.Rd | 2 man/renderRadarChart.Rd | 2 man/renderScatter.Rd | 2 man/renderTreeMap.Rd | 252 +++++++++++++++---------------- 28 files changed, 1061 insertions(+), 1039 deletions(-)
Title: A Penalty Approach to Differential Item Functioning in Rasch
Models
Description: Performs DIFlasso, a method to detect DIF (Differential Item Functioning) in Rasch Models. It can handle settings with many variables and also metric variables.
Author: Gunther Schauberger
Maintainer: Gunther Schauberger <gunther.schauberger@stat.uni-muenchen.de>
Diff between DIFlasso versions 1.0-2 dated 2016-07-21 and 1.0-3 dated 2017-05-09
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/refitDIFlasso.R | 15 ++++++++------- man/DIFlasso-package.Rd | 2 +- man/DIFlasso.Rd | 2 +- man/plot.DIFlasso.Rd | 2 +- man/plot.DIFlasso.refit.Rd | 2 +- man/print.DIFlasso.Rd | 2 +- man/print.DIFlasso.refit.Rd | 2 +- man/refitDIFlasso.Rd | 2 +- 10 files changed, 28 insertions(+), 27 deletions(-)
Title: Quantify Relationship Between Development Rate and Temperature
in Ectotherms
Description: A set of functions to ease quantifying the relationship between development
rate and temperature. The package comprises a set of models and estimated parameters
borrowed from a literature review in ectotherms (mostly arthropods).
Author: Francois Rebaudo [aut, cre],
Quentin Struelens [aut]
Maintainer: Francois Rebaudo <francois.rebaudo@ird.fr>
Diff between devRate versions 0.1.1 dated 2017-01-23 and 0.1.2 dated 2017-05-09
DESCRIPTION | 16 +-- MD5 | 182 ++++++++++++++++++++--------------------- NEWS.md | 5 + R/data.R | 143 ++++++++++++++++++++++---------- R/devRate_nls.R | 24 ++++- build/vignette.rds |binary data/analytis_77.RData |binary data/bayoh_03.RData |binary data/beta_95.RData |binary data/bieri1_83.RData |binary data/briere1_99.RData |binary data/briere2_99.RData |binary data/campbell_74.RData |binary data/damos_08.RData |binary data/damos_11.RData |binary data/davidson_44.RData |binary data/devRateEqList.RData |binary data/harcourtYee_82.RData |binary data/hilbertLogan_83.RData |binary data/janisch_32.RData |binary data/kontodimas_04.RData |binary data/lactin1_95.RData |binary data/lactin2_95.RData |binary data/lamb_92.RData |binary data/logan10_76.RData |binary data/logan6_76.RData |binary data/perf2_11.RData |binary data/poly2.RData |binary data/poly4.RData |binary data/ratkowsky_82.RData |binary data/regniere_12.RData |binary data/rootsq_82.RData |binary data/schoolfieldHigh_81.RData |binary data/schoolfieldLow_81.RData |binary data/schoolfield_81.RData |binary data/sharpeDeMichele_77.RData |binary data/shi_11.RData |binary data/stinner_74.RData |binary data/taylor_81.RData |binary data/wagner_88.RData |binary data/wang_82.RData |binary data/wangengel_98.RData |binary inst/doc/example_tropical.html | 8 - man/analytis_77.Rd | 4 man/bayoh_03.Rd | 4 man/beta_95.Rd | 4 man/bieri1_83.Rd | 4 man/briere1_99.Rd | 4 man/briere2_99.Rd | 4 man/campbell_74.Rd | 4 man/compDifDays.Rd | 1 man/compDifDaysDf.Rd | 1 man/damos_08.Rd | 5 - man/damos_11.Rd | 4 man/davidson_44.Rd | 4 man/devRate.Rd | 1 man/devRateEqList.Rd | 1 man/devRateFind.Rd | 1 man/devRateIBM.Rd | 1 man/devRateIBMPlot.Rd | 1 man/devRateIBMgen.Rd | 1 man/devRateInfo.Rd | 1 man/devRateMap.Rd | 1 man/devRateModel.Rd | 6 - man/devRatePlot.Rd | 1 man/devRatePlotInfo.Rd | 1 man/devRatePrint.Rd | 1 man/harcourtYee_82.Rd | 7 + man/hilbertLogan_83.Rd | 4 man/janisch_32.Rd | 4 man/kontodimas_04.Rd | 4 man/lactin1_95.Rd | 4 man/lactin2_95.Rd | 4 man/lamb_92.Rd | 9 +- man/logan10_76.Rd | 4 man/logan6_76.Rd | 4 man/perf2_11.Rd | 4 man/poly2.Rd | 7 + man/poly4.Rd | 7 + man/ratkowsky_82.Rd | 6 - man/regniere_12.Rd | 9 +- man/rootsq_82.Rd | 4 man/schoolfieldHigh_81.Rd | 4 man/schoolfieldLow_81.Rd | 4 man/schoolfield_81.Rd | 8 - man/sharpeDeMichele_77.Rd | 6 - man/shi_11.Rd | 4 man/stinner_74.Rd | 7 + man/taylor_81.Rd | 4 man/wagner_88.Rd | 9 +- man/wang_82.Rd | 6 - man/wangengel_98.Rd | 4 92 files changed, 330 insertions(+), 245 deletions(-)
Title: A Bunch of Structure and Sequence Analysis
Description: Reads and plots phylogenetic placements obtained using the 'pplacer' and 'guppy' softwares <https://matsen.github.io/pplacer/>.
Author: pierre lefeuvre
Maintainer: pierre lefeuvre <pierre.lefeuvre@cirad.fr>
Diff between BoSSA versions 2.0 dated 2016-10-12 and 2.1 dated 2017-05-09
BoSSA-2.0/BoSSA/R/pplace_tree.R |only BoSSA-2.0/BoSSA/man/pplace_tree.Rd |only BoSSA-2.1/BoSSA/DESCRIPTION | 18 BoSSA-2.1/BoSSA/MD5 | 63 BoSSA-2.1/BoSSA/NAMESPACE | 20 BoSSA-2.1/BoSSA/R/plot.pplace.R |only BoSSA-2.1/BoSSA/R/pplace_to_taxonomy.R |only BoSSA-2.1/BoSSA/R/print.pdb.R |only BoSSA-2.1/BoSSA/R/print.pplace.R |only BoSSA-2.1/BoSSA/R/read_jplace.R | 3 BoSSA-2.1/BoSSA/R/read_pdb.R | 9 BoSSA-2.1/BoSSA/R/read_sqlite.R | 11 BoSSA-2.1/BoSSA/R/refpkg.R |only BoSSA-2.1/BoSSA/build/partial.rdb |binary BoSSA-2.1/BoSSA/build/vignette.rds |only BoSSA-2.1/BoSSA/data/pplace.rda |binary BoSSA-2.1/BoSSA/inst/doc |only BoSSA-2.1/BoSSA/inst/extdata/example.jplace | 787 +++++++--- BoSSA-2.1/BoSSA/inst/extdata/example.refpkg |only BoSSA-2.1/BoSSA/inst/extdata/example.sqlite |binary BoSSA-2.1/BoSSA/inst/extdata/polerovirus.refpkg |only BoSSA-2.1/BoSSA/inst/extdata/polerovirus_from_genbank_MAFFT.tre |only BoSSA-2.1/BoSSA/inst/extdata/polerovirus_taxonomy.csv |only BoSSA-2.1/BoSSA/man/BoSSA-package.Rd | 5 BoSSA-2.1/BoSSA/man/plot.pplace.Rd |only BoSSA-2.1/BoSSA/man/pplace.Rd | 4 BoSSA-2.1/BoSSA/man/pplace_to_matrix.Rd | 14 BoSSA-2.1/BoSSA/man/pplace_to_table.Rd | 6 BoSSA-2.1/BoSSA/man/pplace_to_taxonomy.Rd |only BoSSA-2.1/BoSSA/man/print.pdb.Rd |only BoSSA-2.1/BoSSA/man/print.pplace.Rd |only BoSSA-2.1/BoSSA/man/read_pdb.Rd | 21 BoSSA-2.1/BoSSA/man/read_sqlite.Rd | 31 BoSSA-2.1/BoSSA/man/refpkg.Rd |only BoSSA-2.1/BoSSA/man/sub_pplace.Rd | 20 BoSSA-2.1/BoSSA/vignettes |only 36 files changed, 734 insertions(+), 278 deletions(-)
Title: Bayesian Estimation for Finite Mixture of Distributions
Description: Provides statistical tools for Bayesian estimation for finite mixture of distributions, mainly mixture of Gamma, Normal and t-distributions. The package is implemented the recent improvements in Bayesian literature for the finite mixture of distributions, including Mohammadi and et al. (2013) <doi:10.1007/s00180-012-0323-3> and Mohammadi and Salehi-Rad (2012) <doi:10.1080/03610918.2011.588358>.
Author: Abdolreza Mohammadi
Maintainer: Abdolreza Mohammadi <a.mohammadi@uvt.nl>
Diff between bmixture versions 0.4 dated 2017-04-30 and 0.5 dated 2017-05-09
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NAMESPACE | 1 + man/bmixture-package.Rd | 8 ++++---- 4 files changed, 13 insertions(+), 12 deletions(-)
Title: Bibliometric and Co-Citation Analysis Tool
Description: Tool for quantitative research in scientometrics and bibliometrics.
It provides various routines for importing bibliographic data from SCOPUS (<http://scopus.com>) and
Thomson Reuters' ISI Web of Knowledge (<http://www.webofknowledge.com/>) databases, performing bibliometric analysis
and building data matrices for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut],
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 1.5 dated 2017-03-15 and 1.6 dated 2017-05-09
bibliometrix-1.5/bibliometrix/R/dfMerge.R |only bibliometrix-1.5/bibliometrix/man/dfMerge.Rd |only bibliometrix-1.6/bibliometrix/DESCRIPTION | 10 bibliometrix-1.6/bibliometrix/MD5 | 49 +- bibliometrix-1.6/bibliometrix/NAMESPACE | 7 bibliometrix-1.6/bibliometrix/NEWS | 21 bibliometrix-1.6/bibliometrix/R/cocMatrix.R | 39 + bibliometrix-1.6/bibliometrix/R/convert2df.R | 21 bibliometrix-1.6/bibliometrix/R/duplicatedMatching.R |only bibliometrix-1.6/bibliometrix/R/histNetwork.R | 21 bibliometrix-1.6/bibliometrix/R/isi2df.R | 5 bibliometrix-1.6/bibliometrix/R/isiCollection.R |only bibliometrix-1.6/bibliometrix/R/isibib2df.R | 5 bibliometrix-1.6/bibliometrix/R/mergeDbSources.R |only bibliometrix-1.6/bibliometrix/R/retrievalByAuthorID.R | 27 - bibliometrix-1.6/bibliometrix/R/scopus2df.R | 3 bibliometrix-1.6/bibliometrix/R/scopusCollection.R |only bibliometrix-1.6/bibliometrix/R/termExtraction.R | 33 + bibliometrix-1.6/bibliometrix/R/trim.R |only bibliometrix-1.6/bibliometrix/data/datalist |only bibliometrix-1.6/bibliometrix/data/isiCollection.rda |only bibliometrix-1.6/bibliometrix/data/scopusCollection.rda |only bibliometrix-1.6/bibliometrix/inst/CITATION | 19 bibliometrix-1.6/bibliometrix/inst/doc/bibliometrix-vignette.Rmd | 4 bibliometrix-1.6/bibliometrix/inst/doc/bibliometrix-vignette.html | 241 +++++----- bibliometrix-1.6/bibliometrix/man/duplicatedMatching.Rd |only bibliometrix-1.6/bibliometrix/man/isiCollection.Rd |only bibliometrix-1.6/bibliometrix/man/mergeDbSources.Rd |only bibliometrix-1.6/bibliometrix/man/retrievalByAuthorID.Rd | 8 bibliometrix-1.6/bibliometrix/man/scopusCollection.Rd |only bibliometrix-1.6/bibliometrix/man/termExtraction.Rd | 17 bibliometrix-1.6/bibliometrix/man/trim.Rd |only bibliometrix-1.6/bibliometrix/vignettes/bibliometrix-vignette.Rmd | 4 33 files changed, 336 insertions(+), 198 deletions(-)
Title: R Binder for the Yhat API
Description: Deploy, maintain, and invoke models via the Yhat
REST API.
Author: Greg Lamp <greg@yhathq.com>, Stevie Smith <dev@yhathq.com>, Ross Kippenbrock <ross@yhathq.com>
Maintainer: Greg Lamp <greg@yhathq.com>
Diff between yhatr versions 0.15.0 dated 2016-09-06 and 0.15.1 dated 2017-05-09
DESCRIPTION | 12 ++++++------ MD5 | 46 +++++++++++++++++++++++----------------------- NAMESPACE | 8 +++++--- NEWS | 5 ++++- R/yhatR.R | 26 ++++++++++++++++++++------ man/add.dependency.Rd | 1 - man/capture.src.Rd | 1 - man/check.dependencies.Rd | 1 - man/check.image.size.Rd | 1 - man/is.https.Rd | 1 - man/set.model.require.Rd | 1 - man/yhat.batchDeploy.Rd | 1 - man/yhat.deploy.Rd | 7 +++++-- man/yhat.get.Rd | 1 - man/yhat.library.Rd | 1 - man/yhat.ls.Rd | 1 - man/yhat.post.Rd | 1 - man/yhat.predict.Rd | 1 - man/yhat.predict_bulk.Rd | 1 - man/yhat.predict_raw.Rd | 1 - man/yhat.spider.block.Rd | 1 - man/yhat.spider.func.Rd | 1 - man/yhat.unload.Rd | 1 - man/yhat.verify.Rd | 1 - 24 files changed, 63 insertions(+), 59 deletions(-)
Title: Least-Squares Means
Description: Obtain least-squares means for many linear, generalized linear,
and mixed models. Compute contrasts or linear functions of least-squares
means, and comparisons of slopes. Plots and compact letter displays.
Author: Russell Lenth [aut, cre, cph]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between lsmeans versions 2.25-5 dated 2017-03-12 and 2.26-3 dated 2017-05-09
DESCRIPTION | 11 +-- MD5 | 53 +++++++-------- NAMESPACE | 21 ++---- R/MCMC-support.R | 153 +++++++++++++++++++++++++++++++++++++++++++- R/cld.lsm.R | 2 R/helpers.R | 20 +++++ R/ordinal-support.R | 9 ++ R/plot.lsm.R | 5 - R/ref.grid.R | 67 ++++++++++++++----- R/summary.R | 38 ++++++++-- README.md |only build/vignette.rds |binary inst/CITATION | 38 +++++----- inst/NEWS | 16 ++++ inst/doc/extending.pdf |binary inst/doc/using-lsmeans.R | 94 ++++++++++++++++----------- inst/doc/using-lsmeans.pdf |binary inst/doc/using-lsmeans.rnw | 18 +++++ man/contrast.Rd | 2 man/extending.Rd | 2 man/glht.Rd | 2 man/lsmeans.Rd | 6 - man/models.Rd | 11 ++- man/nutrition.Rd | 2 man/ref.grid.Rd | 4 - man/summary.Rd | 24 ++++-- man/update.Rd | 2 vignettes/using-lsmeans.rnw | 18 +++++ 28 files changed, 469 insertions(+), 149 deletions(-)
Title: Models for Health Economic Evaluation
Description: Health Economic Evaluation Modelling:
decision trees and cohort simulations. Provides a simple
and consistent interface for Markov models specification,
comparison, sensitivity and probabilistic analysis, input of
survival models, etc. Models with time varying properties
(non-homogeneous Markov models and semi-Markov models)
are supported.
Author: Antoine Filipovic-Pierucci [aut, cre],
Kevin Zarca [aut],
Matthew Wiener [ctb],
Zdenek Kabat [ctb],
Vojtech Filipec [ctb],
Jordan Amdahl [ctb]
Maintainer: Antoine Filipovic-Pierucci <pierucci@gmail.com>
Diff between heemod versions 0.9.0 dated 2017-04-07 and 0.9.1 dated 2017-05-09
heemod-0.9.0/heemod/R/get_code.R |only heemod-0.9.0/heemod/inst/doc/a-introduction.R |only heemod-0.9.0/heemod/inst/doc/a-introduction.Rmd |only heemod-0.9.0/heemod/inst/doc/a-introduction.html |only heemod-0.9.0/heemod/inst/doc/b-time-dependency.R |only heemod-0.9.0/heemod/inst/doc/b-time-dependency.Rmd |only heemod-0.9.0/heemod/inst/doc/b-time-dependency.html |only heemod-0.9.0/heemod/inst/doc/c-homogeneous.R |only heemod-0.9.0/heemod/inst/doc/c-homogeneous.Rmd |only heemod-0.9.0/heemod/inst/doc/c-homogeneous.html |only heemod-0.9.0/heemod/inst/doc/d-non-homogeneous.R |only heemod-0.9.0/heemod/inst/doc/d-non-homogeneous.Rmd |only heemod-0.9.0/heemod/inst/doc/d-non-homogeneous.html |only heemod-0.9.0/heemod/inst/doc/e-probabilistic.R |only heemod-0.9.0/heemod/inst/doc/e-probabilistic.Rmd |only heemod-0.9.0/heemod/inst/doc/e-probabilistic.html |only heemod-0.9.0/heemod/inst/doc/f-sensitivity.R |only heemod-0.9.0/heemod/inst/doc/f-sensitivity.Rmd |only heemod-0.9.0/heemod/inst/doc/f-sensitivity.html |only heemod-0.9.0/heemod/inst/doc/g-heterogeneity.R |only heemod-0.9.0/heemod/inst/doc/g-heterogeneity.Rmd |only heemod-0.9.0/heemod/inst/doc/g-heterogeneity.html |only heemod-0.9.0/heemod/inst/doc/h-tabular.R |only heemod-0.9.0/heemod/inst/doc/h-tabular.Rmd |only heemod-0.9.0/heemod/inst/doc/h-tabular.html |only heemod-0.9.0/heemod/inst/doc/i-reproduction.R |only heemod-0.9.0/heemod/inst/doc/i-reproduction.Rmd |only heemod-0.9.0/heemod/inst/doc/i-reproduction.html |only heemod-0.9.0/heemod/inst/doc/j-survival.R |only heemod-0.9.0/heemod/inst/doc/j-survival.Rmd |only heemod-0.9.0/heemod/inst/doc/j-survival.html |only heemod-0.9.0/heemod/inst/doc/k-calibration.R |only heemod-0.9.0/heemod/inst/doc/k-calibration.Rmd |only heemod-0.9.0/heemod/inst/doc/k-calibration.html |only heemod-0.9.0/heemod/inst/shiny |only heemod-0.9.0/heemod/inst/tabular/surv/example_oncOptions_kmlimit.csv |only heemod-0.9.0/heemod/inst/tabular/surv/example_oncSpecs_big_nomatrix_run.csv |only heemod-0.9.0/heemod/inst/tabular/surv/example_oncSpecs_nomatrix_kmlimit.csv |only heemod-0.9.0/heemod/inst/tabular/surv/survival_data |only heemod-0.9.0/heemod/inst/tabular/surv/survival_data_big |only heemod-0.9.0/heemod/inst/tabular/surv/survival_info_big_nomatrix_run.csv |only heemod-0.9.0/heemod/man/file-checkers.Rd |only heemod-0.9.0/heemod/man/get_code.Rd |only heemod-0.9.0/heemod/man/project.Rd |only heemod-0.9.0/heemod/man/safe-conversion.Rd |only heemod-0.9.0/heemod/man/update-model.Rd |only heemod-0.9.0/heemod/man/who-mortality.Rd |only heemod-0.9.0/heemod/tests/testthat/test_get_code.R |only heemod-0.9.0/heemod/tests/testthat/test_gho.R |only heemod-0.9.0/heemod/vignettes/a-introduction.Rmd |only heemod-0.9.0/heemod/vignettes/b-time-dependency.Rmd |only heemod-0.9.0/heemod/vignettes/c-homogeneous.Rmd |only heemod-0.9.0/heemod/vignettes/d-non-homogeneous.Rmd |only heemod-0.9.0/heemod/vignettes/e-probabilistic.Rmd |only heemod-0.9.0/heemod/vignettes/f-sensitivity.Rmd |only heemod-0.9.0/heemod/vignettes/g-heterogeneity.Rmd |only heemod-0.9.0/heemod/vignettes/h-tabular.Rmd |only heemod-0.9.0/heemod/vignettes/i-reproduction.Rmd |only heemod-0.9.0/heemod/vignettes/j-survival.Rmd |only heemod-0.9.0/heemod/vignettes/k-calibration.Rmd |only heemod-0.9.1/heemod/DESCRIPTION | 15 heemod-0.9.1/heemod/MD5 | 206 +++----- heemod-0.9.1/heemod/NAMESPACE | 12 heemod-0.9.1/heemod/NEWS.md | 21 heemod-0.9.1/heemod/R/calibration.R | 1 heemod-0.9.1/heemod/R/combine.R | 18 heemod-0.9.1/heemod/R/efficiency_frontier.R | 13 heemod-0.9.1/heemod/R/gho_mortality.R | 11 heemod-0.9.1/heemod/R/heemod.R | 2 heemod-0.9.1/heemod/R/param_define.R | 4 heemod-0.9.1/heemod/R/param_eval.R | 9 heemod-0.9.1/heemod/R/part_surv.R | 5 heemod-0.9.1/heemod/R/resamp_print.R | 4 heemod-0.9.1/heemod/R/run_model_define.R | 6 heemod-0.9.1/heemod/R/run_model_summary.R | 7 heemod-0.9.1/heemod/R/sensitivity_define.R | 10 heemod-0.9.1/heemod/R/sensitivity_eval.R | 2 heemod-0.9.1/heemod/R/sensitivity_print.R | 6 heemod-0.9.1/heemod/R/strategy_eval.R | 24 heemod-0.9.1/heemod/R/survival_eval.R | 10 heemod-0.9.1/heemod/R/survival_operations.R | 23 heemod-0.9.1/heemod/R/tabular_input.R | 254 ++++++++-- heemod-0.9.1/heemod/R/update.R | 10 heemod-0.9.1/heemod/R/utils.R | 6 heemod-0.9.1/heemod/build/vignette.rds |binary heemod-0.9.1/heemod/inst/doc/a_introduction.R |only heemod-0.9.1/heemod/inst/doc/a_introduction.Rmd |only heemod-0.9.1/heemod/inst/doc/a_introduction.html |only heemod-0.9.1/heemod/inst/doc/b_time_dependency.R |only heemod-0.9.1/heemod/inst/doc/b_time_dependency.Rmd |only heemod-0.9.1/heemod/inst/doc/b_time_dependency.html |only heemod-0.9.1/heemod/inst/doc/c_homogeneous.R |only heemod-0.9.1/heemod/inst/doc/c_homogeneous.Rmd |only heemod-0.9.1/heemod/inst/doc/c_homogeneous.html |only heemod-0.9.1/heemod/inst/doc/d_non_homogeneous.R |only heemod-0.9.1/heemod/inst/doc/d_non_homogeneous.Rmd |only heemod-0.9.1/heemod/inst/doc/d_non_homogeneous.html |only heemod-0.9.1/heemod/inst/doc/e_probabilistic.R |only heemod-0.9.1/heemod/inst/doc/e_probabilistic.Rmd |only heemod-0.9.1/heemod/inst/doc/e_probabilistic.html |only heemod-0.9.1/heemod/inst/doc/f_sensitivity.R |only heemod-0.9.1/heemod/inst/doc/f_sensitivity.Rmd |only heemod-0.9.1/heemod/inst/doc/f_sensitivity.html |only heemod-0.9.1/heemod/inst/doc/g_heterogeneity.R |only heemod-0.9.1/heemod/inst/doc/g_heterogeneity.Rmd |only heemod-0.9.1/heemod/inst/doc/g_heterogeneity.html |only heemod-0.9.1/heemod/inst/doc/h_tabular.R |only heemod-0.9.1/heemod/inst/doc/h_tabular.Rmd |only heemod-0.9.1/heemod/inst/doc/h_tabular.html |only heemod-0.9.1/heemod/inst/doc/i_reproduction.R |only heemod-0.9.1/heemod/inst/doc/i_reproduction.Rmd |only heemod-0.9.1/heemod/inst/doc/i_reproduction.html |only heemod-0.9.1/heemod/inst/doc/j_survival.R |only heemod-0.9.1/heemod/inst/doc/j_survival.Rmd |only heemod-0.9.1/heemod/inst/doc/j_survival.html |only heemod-0.9.1/heemod/inst/doc/k_calibration.R |only heemod-0.9.1/heemod/inst/doc/k_calibration.Rmd |only heemod-0.9.1/heemod/inst/doc/k_calibration.html |only heemod-0.9.1/heemod/inst/examples/example_define_calibration_fn.R | 1 heemod-0.9.1/heemod/inst/tabular/surv/example_oncSpecs_nomatrix.csv | 2 heemod-0.9.1/heemod/inst/tabular/surv/example_oncSpecs_nomatrix_mixed.csv |only heemod-0.9.1/heemod/inst/tabular/surv/fake_fit_tib.csv |only heemod-0.9.1/heemod/inst/tabular/surv/surv_def_ok.csv |only heemod-0.9.1/heemod/inst/tabular/surv/survival_info.csv | 14 heemod-0.9.1/heemod/inst/tabular/surv/use_fits.csv |only heemod-0.9.1/heemod/inst/tabular/surv/use_fits_example0.csv |only heemod-0.9.1/heemod/inst/tabular/surv/use_fits_mixed.csv |only heemod-0.9.1/heemod/inst/tabular/surv/use_fits_with_join.csv |only heemod-0.9.1/heemod/inst/tabular/test/survival_spec_1.csv | 6 heemod-0.9.1/heemod/inst/tabular/test/survival_spec_2.csv | 6 heemod-0.9.1/heemod/inst/tabular/thr/output/cycle_values.csv | 6 heemod-0.9.1/heemod/inst/tabular/thr/output/dsa.csv | 50 - heemod-0.9.1/heemod/inst/tabular/thr/output/dsa_diff.pdf |binary heemod-0.9.1/heemod/inst/tabular/thr/output/dsa_diff.png |binary heemod-0.9.1/heemod/inst/tabular/thr/output/icer_by_group.csv | 6 heemod-0.9.1/heemod/man/construct_part_surv_tib.Rd |only heemod-0.9.1/heemod/man/create_states_from_tabular.Rd | 3 heemod-0.9.1/heemod/man/define_calibration_fn.Rd | 1 heemod-0.9.1/heemod/man/file_checkers.Rd |only heemod-0.9.1/heemod/man/join.Rd |only heemod-0.9.1/heemod/man/part_survs_from_surv_inputs.Rd |only heemod-0.9.1/heemod/man/safe_conversion.Rd |only heemod-0.9.1/heemod/man/update_model.Rd |only heemod-0.9.1/heemod/man/who_mortality.Rd |only heemod-0.9.1/heemod/tests/testthat/Rplots.pdf |binary heemod-0.9.1/heemod/tests/testthat/test_parallel.R | 21 heemod-0.9.1/heemod/tests/testthat/test_parameters.R | 18 heemod-0.9.1/heemod/tests/testthat/test_part_surv.R | 98 ++- heemod-0.9.1/heemod/tests/testthat/test_surv_eval.R | 8 heemod-0.9.1/heemod/vignettes/a_introduction.Rmd |only heemod-0.9.1/heemod/vignettes/b_time_dependency.Rmd |only heemod-0.9.1/heemod/vignettes/c_homogeneous.Rmd |only heemod-0.9.1/heemod/vignettes/d_non_homogeneous.Rmd |only heemod-0.9.1/heemod/vignettes/e_probabilistic.Rmd |only heemod-0.9.1/heemod/vignettes/f_sensitivity.Rmd |only heemod-0.9.1/heemod/vignettes/g_heterogeneity.Rmd |only heemod-0.9.1/heemod/vignettes/h_tabular.Rmd |only heemod-0.9.1/heemod/vignettes/i_reproduction.Rmd |only heemod-0.9.1/heemod/vignettes/j_survival.Rmd |only heemod-0.9.1/heemod/vignettes/k_calibration.Rmd |only 160 files changed, 621 insertions(+), 298 deletions(-)
Title: Estimation of Box-Cox Power Transformation Parameter
Description: Power transformation parameter is estimated for different purposes.
Author: Osman Dag [aut, cre], Ozgur Asar [aut], Ozlem Ilk [aut]
Maintainer: Osman Dag <osman.dag@hacettepe.edu.tr>
Diff between AID versions 1.7 dated 2017-01-14 and 1.8 dated 2017-05-09
DESCRIPTION | 12 - MD5 | 14 - NAMESPACE | 7 R/boxcoxfr.R | 36 +-- R/boxcoxnc.R | 657 +++++++++++++++++++------------------------------------- man/AID.Rd | 4 man/boxcoxfr.Rd | 9 man/boxcoxnc.Rd | 21 - 8 files changed, 269 insertions(+), 491 deletions(-)
Title: Fits a Non-Parametric Bayesian Source Attribution Model
Description: Implements a non-parametric source attribution model to attribute
cases of disease to sources in Bayesian framework with source and type effects.
Type effects are clustered using a Dirichlet Process. Multiple times and
locations are supported.
Author: Poppy Miller [aut, cre, cph],
Chris Jewell [aut],
Jonathan Marshall [ctb],
Nigel French [ctb]
Maintainer: Poppy Miller <p.miller@lancaster.ac.uk>
Diff between sourceR versions 1.0.0 dated 2017-01-15 and 1.0.1 dated 2017-05-09
sourceR-1.0.0/sourceR/R/HaldDP_inits.R |only sourceR-1.0.0/sourceR/R/HaldDP_priors.R |only sourceR-1.0.0/sourceR/R/R6_tests.R |only sourceR-1.0.0/sourceR/R/sim_SA_data.R |only sourceR-1.0.0/sourceR/R/sim_SA_prev.R |only sourceR-1.0.0/sourceR/R/sim_SA_true.R |only sourceR-1.0.0/sourceR/data/sim_SA_data.rda |only sourceR-1.0.0/sourceR/data/sim_SA_prev.rda |only sourceR-1.0.0/sourceR/data/sim_SA_true.rda |only sourceR-1.0.0/sourceR/man/sim_SA_data.Rd |only sourceR-1.0.0/sourceR/man/sim_SA_prev.Rd |only sourceR-1.0.0/sourceR/man/sim_SA_true.Rd |only sourceR-1.0.1/sourceR/DESCRIPTION | 26 sourceR-1.0.1/sourceR/MD5 | 106 - sourceR-1.0.1/sourceR/NAMESPACE | 7 sourceR-1.0.1/sourceR/R/acceptance.R | 6 sourceR-1.0.1/sourceR/R/campy.R | 28 sourceR-1.0.1/sourceR/R/credibleIntervals.R | 17 sourceR-1.0.1/sourceR/R/data.R |only sourceR-1.0.1/sourceR/R/interface.R | 1823 +++++++--------------- sourceR-1.0.1/sourceR/R/mcmc.R | 7 sourceR-1.0.1/sourceR/R/model.R | 5 sourceR-1.0.1/sourceR/R/node.R | 39 sourceR-1.0.1/sourceR/R/posterior.R | 221 +- sourceR-1.0.1/sourceR/R/queue.R |only sourceR-1.0.1/sourceR/R/sim_SA.R |only sourceR-1.0.1/sourceR/R/sourceR.R |only sourceR-1.0.1/sourceR/R/utils.R | 52 sourceR-1.0.1/sourceR/build |only sourceR-1.0.1/sourceR/data/campy.rda |binary sourceR-1.0.1/sourceR/data/sim_SA.rda |only sourceR-1.0.1/sourceR/inst |only sourceR-1.0.1/sourceR/man/AdaptiveDirMRW.Rd | 3 sourceR-1.0.1/sourceR/man/AdaptiveLogDirMRW.Rd | 3 sourceR-1.0.1/sourceR/man/AdaptiveMultiMRW.Rd | 3 sourceR-1.0.1/sourceR/man/Alpha.Rd |only sourceR-1.0.1/sourceR/man/Alpha_.Rd |only sourceR-1.0.1/sourceR/man/DPModel_impl.Rd | 2 sourceR-1.0.1/sourceR/man/DataNode.Rd | 3 sourceR-1.0.1/sourceR/man/DirichletNode.Rd | 2 sourceR-1.0.1/sourceR/man/DirichletProcessNode.Rd | 12 sourceR-1.0.1/sourceR/man/FormulaNode.Rd | 2 sourceR-1.0.1/sourceR/man/GammaNode.Rd | 2 sourceR-1.0.1/sourceR/man/HaldDP.Rd | 332 ++-- sourceR-1.0.1/sourceR/man/Node.Rd | 3 sourceR-1.0.1/sourceR/man/PoisGammaDPUpdate.Rd | 2 sourceR-1.0.1/sourceR/man/PoissonNode.Rd | 2 sourceR-1.0.1/sourceR/man/Prev.Rd |only sourceR-1.0.1/sourceR/man/Q.Rd |only sourceR-1.0.1/sourceR/man/StochasticNode.Rd | 3 sourceR-1.0.1/sourceR/man/X.Rd |only sourceR-1.0.1/sourceR/man/Y.Rd |only sourceR-1.0.1/sourceR/man/campy.Rd | 28 sourceR-1.0.1/sourceR/man/sim_SA.Rd |only sourceR-1.0.1/sourceR/man/sliceTensor.Rd |only sourceR-1.0.1/sourceR/man/sourceR.Rd |only sourceR-1.0.1/sourceR/tests |only sourceR-1.0.1/sourceR/vignettes |only 58 files changed, 1136 insertions(+), 1603 deletions(-)
Title: Infrastructure for Ordering Objects Using Seriation
Description: Infrastructure for seriation with an implementation of several
seriation/sequencing techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also provides (optimally) reordered heatmaps,
color images and clustering visualizations like dissimilarity plots, and
visual assessment of cluster tendency plots (VAT and iVAT).
Author: Michael Hahsler [aut, cre, cph],
Christian Buchta [aut, cph],
Kurt Hornik [aut, cph],
Fionn Murtagh [ctb, cph],
Michael Brusco [ctb, cph],
Stephanie Stahl [ctb, cph],
Hans-Friedrich Koehn [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between seriation versions 1.2-1 dated 2016-08-07 and 1.2-2 dated 2017-05-09
DESCRIPTION | 10 MD5 | 82 +++-- NAMESPACE | 10 NEWS.md |only R/criterion.R | 15 R/criterion.array.R | 16 - R/criterion.dist.R | 29 + R/criterion.matrix.R | 58 +++ R/dissplot.R | 352 +++++++++++------------ R/pimage.R | 85 +++-- R/seriate.dist.R | 612 ---------------------------------------- R/seriate.matrix.R | 155 ---------- R/seriate_ARSA_Branch-Bound.R |only R/seriate_BEA.R |only R/seriate_HC.R |only R/seriate_MDS.R |only R/seriate_PCA.R |only R/seriate_QAP.R |only R/seriate_R2E.R |only R/seriate_SA.R |only R/seriate_SPIN.R |only R/seriate_TSP.R |only R/seriate_VAT.R |only R/seriate_spectral.R |only R/uniscale.R |only README.md | 61 ++- build/vignette.rds |binary data/Chameleon.rda |binary data/Irish.rda |binary data/Munsingen.rda |binary data/Psych24.rda |binary data/SupremeCourt.rda |only data/Townships.rda |binary data/Wood.rda |binary data/Zoo.rda |binary inst/CITATION | 30 - inst/doc/seriation.R | 62 ++-- inst/doc/seriation.Rnw | 28 + inst/doc/seriation.pdf |binary man/SupremeCourt.Rd |only man/criterion.Rd | 54 ++- man/dissplot.Rd | 86 ++--- man/get_order.Rd | 15 man/pimage.Rd | 67 ++-- man/seriate.Rd | 90 +++++ man/uniscale.Rd |only src/arsa.f | 157 ++-------- src/init.c |only tests/testthat/test-criterion.R | 22 + vignettes/seriation.Rnw | 28 + vignettes/seriation.bib | 4 51 files changed, 757 insertions(+), 1371 deletions(-)
Title: 'STK++' Core Library Integration to 'R' using 'Rcpp'
Description: 'STK++' <http://www.stkpp.org> is a collection of
C++ classes for statistics, clustering, linear algebra, arrays (with an
'Eigen'-like API), regression, dimension reduction, etc. The integration of
the library to 'R' is using 'Rcpp'.
The 'rtkore' package includes the header files from the 'STK++' core library.
All files contain only template classes and/or inline functions.
'STK++' is licensed under the GNU LGPL version 2 or later. 'rtkore'
(the 'stkpp' integration into 'R') is licensed under the
GNU GPL version 2 or later. See file LICENSE.note for details.
Author: Serge Iovleff [aut, cre],
Parmeet Bhatia [ctb]
Maintainer: Serge Iovleff <serge.iovleff@stkpp.org>
Diff between rtkore versions 1.2.2 dated 2017-03-12 and 1.3.1 dated 2017-05-09
rtkore-1.2.2/rtkore/inst/doc/rtkpp-QuickRef.R |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-QuickRef.Rnw |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-QuickRef.pdf |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-arrays.R |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-arrays.Rnw |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-arrays.pdf |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-introduction.R |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-introduction.Rnw |only rtkore-1.2.2/rtkore/inst/doc/rtkpp-introduction.pdf |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_AllocatorBase.h |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_CAllocator.h |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_Iterators.h |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_SparseMatrix.h |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/STK_Traits.h |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/operators/STK_DiagonalOperator.h |only rtkore-1.2.2/rtkore/inst/projects/Arrays/include/operators/STK_DotOperators.h |only rtkore-1.2.2/rtkore/inst/projects/STatistiK/include/STK_Stat_BivariateRealReal.h |only rtkore-1.2.2/rtkore/vignettes/rtkpp-QuickRef.Rnw |only rtkore-1.2.2/rtkore/vignettes/rtkpp-arrays.Rnw |only rtkore-1.2.2/rtkore/vignettes/rtkpp-introduction.Rnw |only rtkore-1.3.1/rtkore/DESCRIPTION | 20 rtkore-1.3.1/rtkore/MD5 | 287 ++-- rtkore-1.3.1/rtkore/R/inlineCxxPlugin.R | 13 rtkore-1.3.1/rtkore/R/rtkore.R | 2 rtkore-1.3.1/rtkore/build/vignette.rds |binary rtkore-1.3.1/rtkore/inst/NEWS.Rd | 8 rtkore-1.3.1/rtkore/inst/doc/rtkpp-Arrays.R |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Arrays.Rnw |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Arrays.pdf |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-ArraysQuickRef.R |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-ArraysQuickRef.Rnw |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-ArraysQuickRef.pdf |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Introduction.R |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Introduction.Rnw |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Introduction.pdf |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Tips.Rnw | 13 rtkore-1.3.1/rtkore/inst/doc/rtkpp-Tips.pdf |binary rtkore-1.3.1/rtkore/inst/doc/rtkpp-Utilities.R |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Utilities.Rnw |only rtkore-1.3.1/rtkore/inst/doc/rtkpp-Utilities.pdf |only rtkore-1.3.1/rtkore/inst/include/Algebra.h | 3 rtkore-1.3.1/rtkore/inst/include/Analysis.h | 2 rtkore-1.3.1/rtkore/inst/include/Arrays.h | 2 rtkore-1.3.1/rtkore/inst/include/DManager.h | 2 rtkore-1.3.1/rtkore/inst/include/STKpp.h | 2 rtkore-1.3.1/rtkore/inst/include/STatistiK.h | 2 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_CG.h | 2 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_Cholesky.h |only rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_ISymEigen.h | 2 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_MultiLeastSquare.h | 6 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_Svd.h | 4 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_SymEigen.h | 12 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_WeightedSvd.h | 2 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_lapack_MultiLeastSquare.h | 6 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_lapack_Qr.h | 2 rtkore-1.3.1/rtkore/inst/projects/Algebra/include/STK_lapack_Svd.h | 2 rtkore-1.3.1/rtkore/inst/projects/Analysis/include/STK_Algo.h | 6 rtkore-1.3.1/rtkore/inst/projects/Analysis/include/STK_Algo_FindZero.h | 2 rtkore-1.3.1/rtkore/inst/projects/Analysis/include/STK_IFunction.h | 2 rtkore-1.3.1/rtkore/inst/projects/Analysis/include/STK_ISerie.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array1D.h | 124 + rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2D.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DDiagonal.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DLowerTriangular.h | 7 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DNumber.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DPoint.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DSquare.h | 1 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DUpperTriangular.h | 6 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Array2DVector.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ArrayBase.h | 282 +++ rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ArrayBaseAssign.h | 44 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ArraysTraits.h |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Arrays_Util.h | 20 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_CArray.h | 5 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_CArrayNumber.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_CArrayPoint.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_CArraySquare.h | 9 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_CArrayVector.h | 2 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_Const_Arrays.h | 7 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ExprBase.h | 32 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ExprBaseDot.h | 5 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ExprBaseFunctors.h | 212 +- rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ExprBaseVisitor.h | 24 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_IArray1D.h | 716 +++++----- rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_IArray2D.h | 79 - rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_IArray2DBase.h | 234 +-- rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ICArray.h | 67 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_IContainerRef.h | 3 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ISparseArray.h |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ITContainer.h | 8 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ITContainer1D.h | 242 +-- rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_ITContainer2D.h | 4 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/STK_SparseArray.h |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/allocators |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/iterators |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/operators/STK_BinaryOperators.h | 1 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/operators/STK_ReshapeOperators.h |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/operators/STK_SlicingOperators.h | 3 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/operators/STK_TransposeOperator.h | 3 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/operators/STK_UnaryOperators.h | 1 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/products/STK_DotProduct.h |only rtkore-1.3.1/rtkore/inst/projects/Arrays/include/products/STK_ProductOperators.h | 29 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/visitors/STK_SlicingVisitors.h | 36 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/visitors/STK_VisitorSelector.h | 8 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/visitors/STK_Visitors.h | 34 rtkore-1.3.1/rtkore/inst/projects/Arrays/include/visitors/STK_VisitorsImpl.h | 45 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_Cell.h | 4 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_DManager_Util.h | 2 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_DataFrame.h | 24 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_DataHandler.h | 4 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_ExportToCsv.h | 50 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_HeapSort.h | 41 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_IVariable.h | 22 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_List1D.h | 72 - rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_Option.h | 1 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_PartitionHandler.h | 2 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_ReadWriteCsv.h | 3 rtkore-1.3.1/rtkore/inst/projects/DManager/include/STK_Variable.h | 247 +-- rtkore-1.3.1/rtkore/inst/projects/Rtkpp/include/STK_RMatrix.h | 10 rtkore-1.3.1/rtkore/inst/projects/Rtkpp/include/STK_RVector.h | 23 rtkore-1.3.1/rtkore/inst/projects/Rtkpp/include/STK_wrap.h | 170 ++ rtkore-1.3.1/rtkore/inst/projects/STKernel/include/STK_Arithmetic.h | 4 rtkore-1.3.1/rtkore/inst/projects/STKernel/include/STK_Functors.h | 116 - rtkore-1.3.1/rtkore/inst/projects/STKernel/include/STK_Misc.h | 4 rtkore-1.3.1/rtkore/inst/projects/STKernel/include/STK_Range.h | 80 - rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Law_Gamma.h | 3 rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_MultiLaw_Normal.h | 4 rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_StatTraits.h |only rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_Covariance.h |only rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_Factor.h | 39 rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_Functors.h | 294 +--- rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_MultiFactor.h | 67 rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_MultivariateReal.h | 58 rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_Transform.h | 399 +++-- rtkore-1.3.1/rtkore/inst/projects/STatistiK/include/STK_Stat_UnivariateReal.h | 132 - rtkore-1.3.1/rtkore/inst/projects/Sdk/include/STK_Macros.h | 26 rtkore-1.3.1/rtkore/inst/projects/Sdk/include/STK_MacrosVersion.h | 2 rtkore-1.3.1/rtkore/inst/projects/Sdk/include/STK_MetaTemplate.h | 33 rtkore-1.3.1/rtkore/inst/projects/Sdk/include/STK_StaticAssert.h | 30 rtkore-1.3.1/rtkore/inst/projects/StatModels/include/STK_GaussianModel.h | 4 rtkore-1.3.1/rtkore/inst/unitTests/runit.assign.R |only rtkore-1.3.1/rtkore/inst/unitTests/runit.wrap.R | 115 - rtkore-1.3.1/rtkore/man/rtkore-package.Rd | 1 rtkore-1.3.1/rtkore/man/rtkoreFlags.Rd | 3 rtkore-1.3.1/rtkore/src/fastRand.cpp | 4 rtkore-1.3.1/rtkore/tests/testFastRand.R | 20 rtkore-1.3.1/rtkore/vignettes/images/LetterS.png |only rtkore-1.3.1/rtkore/vignettes/programs/tutoAddingCols.out | 16 rtkore-1.3.1/rtkore/vignettes/programs/tutoAddingRows.out | 18 rtkore-1.3.1/rtkore/vignettes/programs/tutoAppliers.out | 12 rtkore-1.3.1/rtkore/vignettes/programs/tutoCenteringAnArray.out | 16 rtkore-1.3.1/rtkore/vignettes/programs/tutoMergeArrays2D.cpp | 2 rtkore-1.3.1/rtkore/vignettes/programs/tutoProbability.cpp |only rtkore-1.3.1/rtkore/vignettes/programs/tutoProbability.out |only rtkore-1.3.1/rtkore/vignettes/programs/tutoRemoveRowsAndCols.out | 16 rtkore-1.3.1/rtkore/vignettes/programs/tutoStatCovariance.cpp |only rtkore-1.3.1/rtkore/vignettes/programs/tutoStatCovariance.out |only rtkore-1.3.1/rtkore/vignettes/programs/tutoStatFactors.cpp |only rtkore-1.3.1/rtkore/vignettes/programs/tutoStatFactors.out |only rtkore-1.3.1/rtkore/vignettes/programs/tutoStatFunctors.cpp | 1 rtkore-1.3.1/rtkore/vignettes/programs/tutoStatFunctors.out | 20 rtkore-1.3.1/rtkore/vignettes/programs/tutoStatTransform.cpp |only rtkore-1.3.1/rtkore/vignettes/programs/tutoStatTransform.out |only rtkore-1.3.1/rtkore/vignettes/rtkore.bib | 13 rtkore-1.3.1/rtkore/vignettes/rtkore.cls |only rtkore-1.3.1/rtkore/vignettes/rtkpp-Arrays.Rnw |only rtkore-1.3.1/rtkore/vignettes/rtkpp-ArraysQuickRef.Rnw |only rtkore-1.3.1/rtkore/vignettes/rtkpp-Introduction.Rnw |only rtkore-1.3.1/rtkore/vignettes/rtkpp-Tips.Rnw | 13 rtkore-1.3.1/rtkore/vignettes/rtkpp-Utilities.Rnw |only rtkore-1.3.1/rtkore/vignettes/rtkpp-preamble.tex | 54 171 files changed, 2876 insertions(+), 2131 deletions(-)
Title: Bi-Directional Interface Between R and Scala with Callbacks
Description: The Scala <http://www.scala-lang.org/> interpreter is embedded in R and callbacks to R from the embedded interpreter are supported. Conversely, the R interpreter is embedded in Scala. Scala versions in the 2.10.x, 2.11.x, and 2.12.x series are supported.
Author: David B. Dahl [aut, cre]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between rscala versions 2.0.1 dated 2017-04-27 and 2.1.0 dated 2017-05-09
rscala-2.0.1/rscala/inst/java/rscala_2.10-2.0.1.jar |only rscala-2.0.1/rscala/inst/java/rscala_2.11-2.0.1.jar |only rscala-2.0.1/rscala/inst/java/rscala_2.12-2.0.1.jar |only rscala-2.1.0/rscala/DESCRIPTION | 8 rscala-2.1.0/rscala/MD5 | 28 +-- rscala-2.1.0/rscala/NAMESPACE | 8 rscala-2.1.0/rscala/NEWS | 26 ++- rscala-2.1.0/rscala/R/common.R | 4 rscala-2.1.0/rscala/R/protocol.R | 4 rscala-2.1.0/rscala/R/scala.R | 173 +++++++++++--------- rscala-2.1.0/rscala/inst/java/rscala_2.10-2.1.0.jar |only rscala-2.1.0/rscala/inst/java/rscala_2.11-2.1.0.jar |only rscala-2.1.0/rscala/inst/java/rscala_2.12-2.1.0.jar |only rscala-2.1.0/rscala/java/rscala-sources.jar |binary rscala-2.1.0/rscala/man/constructor.Rd | 48 +++-- rscala-2.1.0/rscala/man/eval.Rd | 62 ++++--- rscala-2.1.0/rscala/man/settings.Rd | 2 rscala-2.1.0/rscala/man/strintrpl.Rd | 2 18 files changed, 227 insertions(+), 138 deletions(-)
Title: Extensible, Parallelizable Implementation of the Random Forest
Algorithm
Description: Scalable decision tree training and prediction.
Author: Mark Seligman
Maintainer: Mark Seligman <mseligman@suiji.org>
Diff between Rborist versions 0.1-3 dated 2016-08-20 and 0.1-6 dated 2017-05-09
DESCRIPTION | 11 MD5 | 121 ++-- NAMESPACE | 4 R/ForestFloorExport.Rborist.R | 2 R/PreFormat.R | 2 R/PreFormat.default.R | 6 R/PreTrain.R | 2 R/PreTrain.default.R | 2 R/Rborist.R | 2 R/Rborist.default.R | 91 +-- R/Validate.R |only R/Validate.default.R |only R/predict.Rborist.R | 4 build |only inst/NEWS | 14 inst/doc |only man/Rborist.Rd | 27 man/Validate.Rd |only src/Makevars | 2 src/bottom.cc | 702 ++++++++++++++++------- src/bottom.h | 607 ++++++++++---------- src/bv.cc | 50 + src/bv.h | 30 - src/callback.cc | 46 - src/callback.h | 4 src/forest.cc | 115 +-- src/forest.h | 223 +++---- src/index.cc | 581 +++++++++++-------- src/index.h | 386 ++++++------- src/leaf.cc | 342 +++++------ src/leaf.h | 329 ++++++----- src/param.h | 6 src/path.cc |only src/path.h |only src/predblock.cc | 110 ++- src/predblock.h | 217 +++++-- src/predict.cc | 168 ++--- src/predict.h | 72 +- src/pretree.cc | 149 ++--- src/pretree.h | 111 ++- src/quant.cc | 162 ++--- src/quant.h | 20 src/rcppForest.h | 10 src/rcppLeaf.h | 17 src/rcppMonolith.cc | 885 ++++++++++++++++++++--------- src/rcppPredblock.h | 6 src/rcppRowrank.h |only src/rcppSample.h | 2 src/response.cc | 30 - src/response.h | 14 src/rowrank.cc | 402 +++++++++---- src/rowrank.h | 174 ++++- src/runset.cc | 124 +++- src/runset.h | 132 +++- src/sample.cc | 160 ++--- src/sample.h | 45 - src/samplepred.cc | 165 ++++- src/samplepred.h | 104 +-- src/splitpred.cc | 1242 ++++++++++++++++++++++++++++-------------- src/splitpred.h | 196 ++++-- src/splitsig.cc | 112 ++- src/splitsig.h | 95 ++- src/train.cc | 67 +- src/train.h | 20 vignettes |only 65 files changed, 5412 insertions(+), 3310 deletions(-)
Title: Mixture of Student t Distributions using Importance Sampling and
Expectation Maximization
Description: Flexible multivariate function approximation using adapted
Mixture of Student t Distributions. Mixture of t distribution
is obtained using Importance Sampling weighted Expectation
Maximization algorithm.
Author: N. Basturk, L.F. Hoogerheide, A. Opschoor, H.K. van Dijk
Maintainer: N. Basturk <n.basturk@maastrichtuniversity.nl>
Diff between MitISEM versions 1.0 dated 2012-09-18 and 1.1 dated 2017-05-09
DESCRIPTION | 17 - MD5 | 15 - NAMESPACE | 3 NEWS |only R/MitISEM.R | 592 ++++++++++++++++++++++++------------------------- THANKS | 5 man/MitISEM-package.Rd | 16 - man/MitISEM.Rd | 72 +++++ man/SeqMitISEM.rd | 117 +++++++++ 9 files changed, 515 insertions(+), 322 deletions(-)
Title: Functions for Thermal Comfort Research
Description: Functions to calculate various common and less common thermal comfort indices, convert physical variables, and evaluate the performance of thermal comfort indices.
Author: Marcel Schweiker [aut, cre] and Sophia Mueller [aut] and Michael Kleber [ctr] and Boris Kingma [ctr] and Masanori Shukuya [ctr]
Maintainer: Marcel Schweiker <marcel.schweiker@kit.edu>
Diff between comf versions 0.1.6 dated 2016-09-28 and 0.1.7 dated 2017-05-09
DESCRIPTION | 8 +++---- MD5 | 25 +++++++++++++-------- NAMESPACE | 3 +- NEWS | 14 +++++++++--- R/dfISO7933AppF.R |only R/fct2Node.r | 6 ++--- R/fctCalcISO7933.R |only R/fctHelp.r | 2 - R/fctdTNZ.r | 49 ++++++++++++++++++++++++++++--------------- build/vignette.rds |binary data/dfISO7933AppF.RData |only inst/doc/R_packages-comf.pdf |binary man/calcISO7933.Rd |only man/calcdTNZ.Rd | 22 ++++++++++++++++--- man/comf-package.Rd | 7 +++--- man/dfISO7933AppF.Rd |only 16 files changed, 91 insertions(+), 45 deletions(-)
Title: Package for Community Ecology and Suitability Analysis
Description: Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
Author: Roeland Kindt
Maintainer: Roeland Kindt <R.KINDT@CGIAR.ORG>
Diff between BiodiversityR versions 2.8-0 dated 2017-01-08 and 2.8-2 dated 2017-05-09
DESCRIPTION | 11 +- MD5 | 38 +++---- R/BiodiversityRGUI.R | 2 R/CAPdiscrim.R | 32 +++--- R/diversityvariables.R | 18 +-- R/ensemble.VIF.R | 2 R/ensemble.batch.R | 44 ++------- R/ensemble.calibrate.models.R | 80 ++++------------ R/ensemble.calibrate.weights.R | 82 +++++----------- R/ensemble.drop1.R | 7 - R/ensemble.raster.R | 198 +++++++++++++++++++---------------------- R/evaluation.strip.data.R | 175 +++++++++++++++++++++++++----------- R/ordisymbol.R | 40 ++++++-- inst/ChangeLog | 26 +++++ inst/etc/BiodiversityGUI.R | 33 +++--- man/CAPdiscrim.Rd | 17 ++- man/ensemble.Rd | 22 +++- man/ensemble.batch.Rd | 12 +- man/ensemble.raster.Rd | 11 -- man/ordisymbol.Rd | 14 ++ 20 files changed, 455 insertions(+), 409 deletions(-)