Title: R API Datetime
Description: Access to the C-level R date and datetime code is provided for
C-level API use by other packages via registration of native functions.
Client packages simply include a single header 'RApiDatetime.h' provided
by this package, and also 'import' it. The R Core group is the original
author of the code made available with slight modifications by this package.
Author: Dirk Eddelbuettel and R Core (original code)
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RApiDatetime versions 0.0.1 dated 2017-03-23 and 0.0.2 dated 2017-03-25
ChangeLog | 13 +++++++++++++ DESCRIPTION | 9 ++++----- MD5 | 9 +++++---- README.md | 17 ++++++++++++++--- inst/NEWS.Rd |only src/datetime.c | 2 +- 6 files changed, 37 insertions(+), 13 deletions(-)
Title: Create American Psychological Association (APA) Style Tables
Description: A common task faced by researchers is the creation of APA style
(i.e., American Psychological Association style) tables from statistical
output. In R a large number of function calls are often needed to obtain all of
the desired information for a single APA style table. As well, the process of
manually creating APA style tables in a word processor is prone to transcription
errors. This package creates Word files (.doc files) containing APA style tables
for several types of analyses. Using this package minimizes transcription errors
and reduces the number commands needed by the user.
Author: David Stanley [aut, cre]
Maintainer: David Stanley <dstanley@uoguelph.ca>
Diff between apaTables versions 1.0.4 dated 2015-11-21 and 1.5.0 dated 2017-03-25
DESCRIPTION | 29 + LICENSE |only MD5 | 78 ++-- NAMESPACE | 13 R/apaANOVAFTable.R |only R/apaANOVATable1way.R | 61 +-- R/apaANOVATable2way.R | 122 +++--- R/apaCorrelationTable.R | 262 ++++++------- R/apaDvalueTable.R | 400 ++++++++++---------- R/apaRegressionTable.R | 732 +++++++++++++++++++++++--------------- R/apaTables.R | 218 +++++++++-- R/data-album.R | 1 R/data-eysenck.R | 1 R/data-fidler_thompson.R |only R/data-goggles.R | 1 R/data-viagra.R | 1 R/deltaR2.R |only R/etaSquaredCI.R |only R/rtfMakeTable.R | 86 ++-- R/tests_for_apaTables.R |only README.md |only build |only data/fidler_thompson.rda |only inst |only man/Eysenck.Rd | 4 man/album.Rd | 4 man/apa.1way.table.Rd | 10 man/apa.2way.table.Rd | 11 man/apa.aov.table.Rd |only man/apa.cor.table.Rd | 2 man/apa.d.table.Rd | 4 man/apa.reg.table.Rd | 10 man/apaTables.Rd | 27 - man/fidler_thompson.Rd |only man/get.ci.partial.eta.squared.Rd |only man/goggles.Rd | 4 man/viagra.Rd | 4 tests |only vignettes |only 39 files changed, 1240 insertions(+), 845 deletions(-)
Title: Trellis Graphics for R
Description: A powerful and elegant high-level data visualization
system inspired by Trellis graphics, with an emphasis on
multivariate data. Lattice is sufficient for typical graphics needs,
and is also flexible enough to handle most nonstandard requirements.
See ?Lattice for an introduction.
Author: Deepayan Sarkar <deepayan.sarkar@r-project.org>
Maintainer: Deepayan Sarkar <deepayan.sarkar@r-project.org>
Diff between lattice versions 0.20-34 dated 2016-09-06 and 0.20-35 dated 2017-03-25
DESCRIPTION | 12 ++++++------ MD5 | 38 +++++++++++++++++++++----------------- NEWS | 5 +++++ R/bwplot.R | 6 +++--- R/cloud.R | 18 +++++++++--------- R/densityplot.R | 12 ++---------- R/miscellaneous.R | 13 ++++++++++--- R/panels.R | 1 + R/xyplot.ts.R | 16 ++++++++++------ README.md |only data/USMortality.rda |only data/USRegionalMortality.rda |only data/barley.rda |binary data/environmental.rda |binary data/ethanol.rda |binary data/melanoma.rda |binary data/singer.rda |binary man/USMortality.Rd |only man/histogram.Rd | 6 ++---- man/llines.Rd | 10 +++++++--- man/melanoma.Rd | 2 +- po/R-lattice.pot | 4 ++-- 22 files changed, 79 insertions(+), 64 deletions(-)
Title: Thermal Image Analysis
Description: A collection of functions and routines for inputting thermal
image video files, plotting and converting binary raw data into estimates of
temperature. First published 2015-03-26. Written primarily for research purposes
in biological applications of thermal images. v1 included the base calculations
for converting thermal image binary values to temperatures. v2 included additional
equations for providing heat transfer calculations and an import function for thermal
image files (v2.2.3 fixed error importing thermal image to windows OS). v3. Added numerous
functions for importing thermal image videos, rewriting and exporting.
Author: Glenn J. Tattersall
Maintainer: Glenn J. Tattersall <gtatters@brocku.ca>
Diff between Thermimage versions 2.2.3 dated 2016-10-20 and 3.0.0 dated 2017-03-25
DESCRIPTION | 17 - MD5 | 153 ++++++---- NAMESPACE | 58 +++ R/Grashof.R | 2 R/Ld.R | 2 R/Lu.R | 2 R/Lw.R | 2 R/Nusseltforced.R | 2 R/Nusseltfree.R | 2 R/Prandtl.R | 2 R/Reynolds.R | 2 R/StephBoltz.R | 2 R/Te.R | 2 R/Teq.R | 2 R/Tground.R | 2 R/airdensity.R | 2 R/airspecificheat.R | 2 R/airtconductivity.R | 2 R/airviscosity.R | 2 R/areacone.R | 2 R/areacylinder.R | 2 R/areasphere.R | 2 R/cumulDiff.R |only R/diffFrame.R |only R/flip.matrix.R | 2 R/flirsettings.R | 2 R/forcedparameters.R | 2 R/frameLocates.R |only R/freeparameters.R | 2 R/getFrames.R |only R/getTimes.R |only R/hconv.R | 2 R/locate.fid.R | 5 R/meanEveryN.R | 2 R/mirror.matrix.R | 2 R/nameleadzero.R |only R/palette.choose.R | 2 R/plotTherm.R |only R/qabs.R | 4 R/qcond.R | 2 R/qconv.R | 2 R/qrad.R | 2 R/raw2temp.R | 2 R/readflirJPG.R | 4 R/rotate180.matrix.R | 2 R/rotate270.matrix.R | 2 R/rotate90.matrix.R | 2 R/slopeEveryN.R | 2 R/slopebypoint.R | 2 R/sysdata.rda |binary R/temp2raw.R | 2 R/thermsum.R |only R/thermsumcent.R |only R/writeFlirBin.R |only README.md | 679 ++++++++++++++++++++++++++++++++++++++++++++- data/flirpal.RData |only data/glowbowpal.RData |only data/grey10pal.RData |only data/grey120pal.RData |only data/greyredpal.RData |only data/hotironpal.RData |only data/ironbowpal.RData |only data/medicalpal.RData |only data/midgreenpal.RData |only data/midgreypal.RData |only data/mikronprismpal.RData |only data/mikroscanpal.RData |only data/rainbowpal.RData |only data/yellowpal.RData |only inst/extdata/SampleSEQ.seq |only man/Grashof.Rd | 9 man/Ld.Rd | 13 man/Lu.Rd | 7 man/Lw.Rd | 9 man/Te.Rd | 10 man/Tground.Rd | 8 man/airtconductivity.Rd | 3 man/airviscosity.Rd | 2 man/cumulDiff.Rd |only man/diffFrame.Rd |only man/flirsettings.Rd | 22 - man/frameLocates.Rd |only man/getFrames.Rd |only man/getTimes.Rd |only man/mirror.matrix.Rd | 5 man/nameleadzero.Rd |only man/plotTherm.Rd |only man/raw2temp.Rd | 18 + man/rotate180.matrix.Rd | 7 man/rotate270.matrix.Rd | 5 man/rotate90.matrix.Rd | 6 man/slopeEveryN.Rd | 2 man/thermsum.Rd |only man/thermsumcent.Rd |only man/writeFlirBin.Rd |only 95 files changed, 964 insertions(+), 156 deletions(-)
Title: Simulation of Diffusion Processes
Description: Provides the functions for simulating and modeling of Ito and Stratonovich stochastic differential equations (SDE's). Statistical analysis and Monte-Carlo simulation of the solution of SDE's enabled many searchers in different domains to use these equations to modeling practical problems, in financial and actuarial modeling and other areas of application. For example, modeling and simulate of dispersion in shallow water using the attractive center (Boukhetala K, 1996).
Author: Arsalane Chouaib Guidoum [cre, aut],
Kamal Boukhetala [aut]
Maintainer: Arsalane Chouaib Guidoum <acguidoum@usthb.dz>
Diff between Sim.DiffProc versions 3.6 dated 2016-11-13 and 3.7 dated 2017-03-25
DESCRIPTION | 13 - MD5 | 46 +++--- NAMESPACE | 6 NEWS | 6 R/bridgesde.R | 12 - R/dsde.r | 39 +++-- R/snssde.R | 16 +- R/utils.R | 96 +++++++++++- R/zzz.r | 6 build/vignette.rds |binary inst/doc/Sim.DiffProc.html | 19 +- inst/doc/fitsde.html | 94 ++++++------ inst/doc/fptsde.html | 142 +++++++++--------- inst/doc/sde.R | 21 +- inst/doc/sde.Rmd | 23 +-- inst/doc/sde.html | 329 ++++++++++++++++++++------------------------ man/Sim.DiffProc-package.Rd | 20 +- man/bconfint.Rd | 3 man/fitsde.Rd | 1 man/rsde2d.Rd | 2 man/rsde3d.Rd | 31 ++-- src/init.c | 24 ++- tests/rsde.R | 21 -- vignettes/sde.Rmd | 23 +-- 24 files changed, 523 insertions(+), 470 deletions(-)
Title: Tools for Reading and Handling Spatial Objects
Description: Set of tools for manipulating and reading geographic data, in particular 'ESRI Shapefiles'; C code used from 'shapelib'. It includes binary access to 'GSHHG' shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as 'PBSmapping', 'spatstat', 'maps', 'RArcInfo', 'Stata tmap', 'WinBUGS', 'Mondrian', and others.
Author: Roger Bivand [cre, aut],
Nicholas Lewin-Koh [aut],
Edzer Pebesma [ctb],
Eric Archer [ctb],
Adrian Baddeley [ctb],
Nick Bearman [ctb],
Hans-Jörg Bibiko [ctb],
Steven Brey [ctb],
Jonathan Callahan [ctb],
German Carrillo [ctb],
Stéphane Dray [ctb],
David Forrest [ctb],
Michael Friendly [ctb],
Patrick Giraudoux [ctb],
Duncan Golicher [ctb],
Virgilio Gómez Rubio [ctb],
Patrick Hausmann [ctb],
Karl Ove Hufthammer [ctb],
Thomas Jagger [ctb],
Kent Johnson [ctb],
Sebastian Luque [ctb],
Don MacQueen [ctb],
Andrew Niccolai [ctb],
Edzer Pebesma [ctb],
Oscar Perpiñán Lamigueiro [ctb],
Tom Short [ctb],
Greg Snow [ctb],
Ben Stabler [ctb],
Murray Stokely [ctb],
Rolf Turner [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between maptools versions 0.9-1 dated 2017-02-23 and 0.9-2 dated 2017-03-25
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/spatstat1.R | 13 ++++++++++++- build/vignette.rds |binary inst/doc/combine_maptools.pdf |binary 5 files changed, 21 insertions(+), 10 deletions(-)
Title: Dependencies for the 'jamovi' Framework
Description: 'jamovi' is a framework for creating rich interactive statistical
analyses (see <https://www.jamovi.org> for more information). This package
represents the core libraries which jamovi analyses written in R depend
upon.
Author: Jonathon Love
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmvcore versions 0.4.0 dated 2017-02-17 and 0.5.0 dated 2017-03-25
jmvcore-0.4.0/jmvcore/README.md |only jmvcore-0.4.0/jmvcore/tests/testthat/test-profiletable.R |only jmvcore-0.4.0/jmvcore/tests/testthat/test-table.R |only jmvcore-0.5.0/jmvcore/DESCRIPTION | 8 - jmvcore-0.5.0/jmvcore/MD5 | 38 +++--- jmvcore-0.5.0/jmvcore/NAMESPACE | 10 + jmvcore-0.5.0/jmvcore/R/analysis.R | 22 +++ jmvcore-0.5.0/jmvcore/R/array.R | 18 +++ jmvcore-0.5.0/jmvcore/R/cell.R | 3 jmvcore-0.5.0/jmvcore/R/column.R | 30 +++++ jmvcore-0.5.0/jmvcore/R/group.R | 17 +++ jmvcore-0.5.0/jmvcore/R/html.R | 2 jmvcore-0.5.0/jmvcore/R/image.R | 7 + jmvcore-0.5.0/jmvcore/R/options.R | 22 +++ jmvcore-0.5.0/jmvcore/R/preformatted.R | 2 jmvcore-0.5.0/jmvcore/R/results.R | 34 ++++++ jmvcore-0.5.0/jmvcore/R/state.R |only jmvcore-0.5.0/jmvcore/R/table.R | 85 ++++++++++++++- jmvcore-0.5.0/jmvcore/R/utils.R | 16 ++ jmvcore-0.5.0/jmvcore/inst/jamovi.proto | 43 ++++++- jmvcore-0.5.0/jmvcore/man/Analysis.Rd | 5 jmvcore-0.5.0/jmvcore/man/Options.Rd | 3 22 files changed, 326 insertions(+), 39 deletions(-)
Title: Wrapper for 'FFTW3' Includes: One-Dimensional Univariate,
One-Dimensional Multivariate, and Two-Dimensional Transform
Description: Provides a wrapper for several 'FFTW' functions. This package provides access to the two-dimensional 'FFT', the multivariate 'FFT', and the one-dimensional real to complex 'FFT' using the 'FFTW3' library. The package includes the functions fftw() and mvfftw() which are designed to mimic the functionality of the R functions fft() and mvfft(). The 'FFT' functions have a parameter that allows them to not return the redundant complex conjugate when the input is real data.
Author: Karim Rahim <karim.rahim@queensu.ca>
Maintainer: Karim Rahim <karim.rahim@queensu.ca>
Diff between fftwtools versions 0.9-7 dated 2015-03-18 and 0.9-8 dated 2017-03-25
DESCRIPTION | 14 ++++----- MD5 | 15 +++++----- NAMESPACE | 5 ++- R/fftwtools.R | 55 ++++++++++++++++++++------------------ build/vignette.rds |binary inst/doc/testTimeAndSimpleUse.pdf |binary src/fftwtools.c | 16 +++++------ src/fftwtools.h | 16 +++++------ src/fftwtools_init.c |only 9 files changed, 63 insertions(+), 58 deletions(-)
Title: Measurement Units for R Vectors
Description: Support for measurement units in R vectors; automatic propagation,
conversion, derivation and simplification of units; raising errors in case
of unit incompatibility. Compatible with the difftime class. Uses the UNIDATA
udunits library and unit database for unit conversion and compatibility
checking.
Author: Edzer Pebesma [aut, cre],
Thomas Mailund [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between units versions 0.4-2 dated 2017-01-13 and 0.4-3 dated 2017-03-25
units-0.4-2/units/data |only units-0.4-2/units/inst/doc/measurement_units_in_R.Rnw |only units-0.4-2/units/inst/doc/measurement_units_in_R.pdf |only units-0.4-2/units/man/as.units.difftime.Rd |only units-0.4-2/units/man/units-set-.numeric.Rd |only units-0.4-2/units/man/units.units.Rd |only units-0.4-2/units/vignettes/RJournal.sty |only units-0.4-2/units/vignettes/fig1.pdf |only units-0.4-2/units/vignettes/fig2.pdf |only units-0.4-2/units/vignettes/measurement_units_in_R.Rnw |only units-0.4-3/units/DESCRIPTION | 18 - units-0.4-3/units/MD5 | 79 ++--- units-0.4-3/units/NAMESPACE | 4 units-0.4-3/units/R/arith.R | 8 units-0.4-3/units/R/conversion.R | 71 +++-- units-0.4-3/units/R/summaries.R | 25 + units-0.4-3/units/R/symbolic_units.R | 106 +------ units-0.4-3/units/R/sysdata.rda |only units-0.4-3/units/R/ud_units.R | 1 units-0.4-3/units/build/vignette.rds |binary units-0.4-3/units/inst/CITATION |only units-0.4-3/units/inst/doc/measurement_units_in_R.R | 227 ++++------------- units-0.4-3/units/inst/doc/measurement_units_in_R.Rmd |only units-0.4-3/units/inst/doc/measurement_units_in_R.html |only units-0.4-3/units/inst/doc/units.R | 36 +- units-0.4-3/units/inst/doc/units.Rmd | 72 ++--- units-0.4-3/units/inst/doc/units.html | 159 +++++++---- units-0.4-3/units/man/Math.units.Rd | 1 units-0.4-3/units/man/Ops.units.Rd | 1 units-0.4-3/units/man/as.dt.Rd | 1 units-0.4-3/units/man/as.units.Rd | 16 + units-0.4-3/units/man/as_cf.Rd | 1 units-0.4-3/units/man/hist.units.Rd | 1 units-0.4-3/units/man/make_unit.Rd | 1 units-0.4-3/units/man/parse_unit.Rd | 1 units-0.4-3/units/man/plot.units.Rd | 2 units-0.4-3/units/man/type_sum.units.Rd | 1 units-0.4-3/units/man/ud_units.Rd | 1 units-0.4-3/units/man/unitless.Rd | 1 units-0.4-3/units/man/units.Rd | 52 +++ units-0.4-3/units/man/units_options.Rd | 1 units-0.4-3/units/tests/testthat/test_conversion.R | 17 + units-0.4-3/units/tests/testthat/test_misc.R | 20 + units-0.4-3/units/tests/testthat/test_summaries.R | 4 units-0.4-3/units/tests/testthat/test_symbolic_units.R | 30 +- units-0.4-3/units/vignettes/measurement_units_in_R.Rmd |only units-0.4-3/units/vignettes/measurement_units_in_R.bib | 16 + units-0.4-3/units/vignettes/units.Rmd | 72 ++--- 48 files changed, 530 insertions(+), 516 deletions(-)
Title: Functions for Benchmarking Time Series Prediction
Description: Functions for time series prediction and accuracy assessment using automatic linear modelling. The generated linear models and its yielded prediction errors can be used for benchmarking other time series prediction methods and for creating a demand for the refinement of such methods. For this purpose, benchmark data from prediction competitions may be used.
Author: Rebecca Pontes Salles [aut, cre, cph] (CEFET/RJ), Eduardo Ogasawara [ths] (CEFET/RJ)
Maintainer: Rebecca Pontes Salles <rebeccapsalles@acm.org>
Diff between TSPred versions 3.0 dated 2017-03-17 and 3.0.1 dated 2017-03-25
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ R/fittestArima.r | 8 ++++---- R/fittestLM.r | 2 +- man/TSPred-package.Rd | 17 ++++++++--------- man/fittestArima.Rd | 20 ++++++++------------ man/fittestArimaKF.Rd | 2 +- 7 files changed, 33 insertions(+), 37 deletions(-)
Title: Teaching Bayesian Inference
Description: Several functions for communicating Bayesian thinking including Bayes rule for deciding among spinners, visualizations for Bayesian inference for one proportion and for one mean, and comparison of two proportions using a discrete prior.
Author: Jim Albert
Maintainer: Jim Albert <albert@bgsu.edu>
Diff between TeachBayes versions 0.1.0 dated 2017-01-14 and 1.0 dated 2017-03-25
DESCRIPTION | 6 +- MD5 | 100 +++++++++++++++++++++-------------------- NAMESPACE | 3 - R/dsampling.R |only R/many_normal_plots.R | 2 R/normal_area.R | 1 R/normal_draw.R | 1 R/normal_interval.R | 5 +- R/normal_quantile.R | 1 R/normal_update.R | 1 R/prior_post_plot.R | 5 +- R/prob_plot.R | 6 ++ R/spinner_plot.R | 8 +-- R/spinner_probs.R | 4 - R/testing_prior.R | 15 +++--- R/two_p_update.R | 6 +- build/vignette.rds |binary inst/doc/beta_example.html | 6 +- inst/doc/finite_sampling.R |only inst/doc/finite_sampling.Rmd |only inst/doc/finite_sampling.html |only inst/doc/spinner_example.html | 16 +++--- inst/doc/teachbayes_intro.R | 9 +++ inst/doc/teachbayes_intro.Rmd | 15 +++++- inst/doc/teachbayes_intro.html | 95 ++++++++++++++++++++++---------------- inst/doc/two_proportions.R | 9 ++- inst/doc/two_proportions.Rmd | 11 ++-- inst/doc/two_proportions.html | 49 ++++++++++++++------ man/ChooseBeta.Rd | 2 man/bar_plot.Rd | 6 +- man/bayesian_crank.Rd | 3 - man/beta_data.Rd | 4 - man/beta_interval.Rd | 2 man/beta_prior_post.Rd | 2 man/beta_quantile.Rd | 8 ++- man/draw_two_p.Rd | 2 man/dsampling.Rd |only man/many_normal_plots.Rd | 4 + man/normal_area.Rd | 4 - man/normal_interval.Rd | 5 +- man/normal_quantile.Rd | 5 +- man/normal_update.Rd | 3 - man/prior_post_plot.Rd | 4 - man/prob_plot.Rd | 6 +- man/spinner_data.Rd | 2 man/spinner_likelihoods.Rd | 6 +- man/spinner_plot.Rd | 5 +- man/spinner_probs.Rd | 4 - man/testing_prior.Rd | 8 ++- man/two_p_summarize.Rd | 8 ++- man/two_p_update.Rd | 14 +++-- vignettes/finite_sampling.Rmd |only vignettes/teachbayes_intro.Rmd | 15 +++++- vignettes/two_proportions.Rmd | 11 ++-- 54 files changed, 314 insertions(+), 193 deletions(-)
Title: Basic Functions for Supporting an Implementation of Case 2
Best-Worst Scaling
Description: Provides three basic functions that support an implementation of Case 2 (profile case) best-worst scaling. The first is to convert an orthogonal main-effect design into questions, the second is to create a dataset suitable for analysis, and the third is to calculate count-based scores.
Author: Hideo Aizaki
Maintainer: Hideo Aizaki <azk-r@spa.nifty.com>
Diff between support.BWS2 versions 0.1-0 dated 2017-01-18 and 0.1-1 dated 2017-03-25
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NEWS | 6 ++++++ R/bws2.table.R | 2 -- data |only man/agritourism.Rd |only man/support.BWS2-package.Rd | 6 ++++++ 7 files changed, 22 insertions(+), 10 deletions(-)
Title: Basic Functions for Power Analysis
Description: Power analysis functions along the lines of Cohen (1988).
Author: Stephane Champely [aut],
Claus Ekstrom [ctb],
Peter Dalgaard [ctb],
Jeffrey Gill [ctb],
Stephan Weibelzahl [ctb],
Aditya Anandkumar [ctb],
Clay Ford [ctb],
Robert Volcic [ctb],
Helios De Rosario [cre]
Maintainer: Helios De Rosario <helios.derosario@gmail.com>
Diff between pwr versions 1.2-0 dated 2016-08-24 and 1.2-1 dated 2017-03-25
pwr-1.2-0/pwr/ChangeLog |only pwr-1.2-1/pwr/DESCRIPTION | 18 ++++++++++++----- pwr-1.2-1/pwr/MD5 | 35 +++++++++++++++++++--------------- pwr-1.2-1/pwr/NEWS |only pwr-1.2-1/pwr/R/plot.power.htest.R | 3 ++ pwr-1.2-1/pwr/R/pwr.2p.test.R | 2 - pwr-1.2-1/pwr/R/pwr.2p2n.test.R | 4 +-- pwr-1.2-1/pwr/R/pwr.anova.test.R | 2 - pwr-1.2-1/pwr/R/pwr.chisq.test.R | 4 +-- pwr-1.2-1/pwr/R/pwr.f2.test.R | 2 - pwr-1.2-1/pwr/R/pwr.norm.test.R | 2 - pwr-1.2-1/pwr/R/pwr.p.test.R | 2 - pwr-1.2-1/pwr/R/pwr.r.test.R | 2 - pwr-1.2-1/pwr/R/pwr.t.test.R | 2 - pwr-1.2-1/pwr/R/pwr.t2n.test.R | 4 +-- pwr-1.2-1/pwr/build |only pwr-1.2-1/pwr/inst |only pwr-1.2-1/pwr/man/plot.power.htest.Rd | 16 ++++----------- pwr-1.2-1/pwr/man/pwr-package.Rd | 7 +++--- pwr-1.2-1/pwr/vignettes |only 20 files changed, 58 insertions(+), 47 deletions(-)
Title: Multi-Step Adaptive Estimation Methods for Sparse Regressions
Description: Multi-step adaptive elastic-net (MSAENet) algorithm for
feature selection in high-dimensional regressions proposed in
Xiao and Xu (2015) <DOI:10.1080/00949655.2015.1016944>,
with additional support for multi-step adaptive MCP-net
(MSAMNet) and multi-step adaptive SCAD-net (MSASNet) methods.
Author: Nan Xiao [aut, cre]
Maintainer: Nan Xiao <me@nanx.me>
Diff between msaenet versions 2.4 dated 2017-02-18 and 2.5 dated 2017-03-25
DESCRIPTION | 6 +- MD5 | 38 ++++++++--------- NEWS.md | 7 +++ R/aenet.R | 19 ++++---- R/amnet.R | 21 +++++---- R/asnet.R | 21 +++++---- R/msaenet-sim.R | 37 ++++++++++------- R/msaenet-tune-glmnet.R | 38 ++++++++++------- R/msaenet-tune-ncvreg.R | 94 +++++++++++++++++++++++--------------------- R/msaenet.R | 25 ++++++----- R/msamnet.R | 27 ++++++------ R/msasnet.R | 27 ++++++------ R/plot-msaenet.R | 33 ++++++++------- R/print-msaenet.R | 5 +- README.md | 9 +--- build/vignette.rds |binary inst/doc/msaenet.html | 4 - man/msaenet.sim.binomial.Rd | 3 - man/msaenet.sim.gaussian.Rd | 3 - man/msaenet.sim.poisson.Rd | 3 - 20 files changed, 228 insertions(+), 192 deletions(-)
Title: Benchmarking and Visualization Toolkit for Penalized Cox Models
Description: Creates nomogram visualizations for penalized Cox regression
models, with the support of reproducible survival model building,
validation, calibration, and comparison for high-dimensional data.
Author: Nan Xiao [aut, cre],
Qingsong Xu [aut],
Miaozhu Li [aut]
Maintainer: Nan Xiao <me@nanx.me>
Diff between hdnom versions 4.6 dated 2017-01-08 and 4.8 dated 2017-03-25
DESCRIPTION | 10 MD5 | 180 +-- NEWS.md | 15 R/01-hdnom-models.R | 741 ++++++++-------- R/02-hdnom-nomogram.R | 90 + R/03-hdnom-validate.R | 884 ++++++++++--------- R/04-hdnom-calibrate.R | 998 +++++++++++----------- R/05-hdnom-external-validate.R | 301 +++--- R/06-hdnom-external-calibrate.R | 125 +- R/07-hdnom-kmplot.R | 95 +- R/08-hdnom-logrank.R | 21 R/09-hdnom-compare-validate.R | 546 ++++++------ R/10-hdnom-compare-calibrate.R | 481 +++++----- README.md | 21 build/vignette.rds |binary inst/doc/hdnom.Rmd | 6 inst/doc/hdnom.html | 14 man/glmnet.basesurv.Rd | 1 man/glmnet.calibrate.internal.pred.Rd | 1 man/glmnet.external.calibrate.internal.pred.Rd | 1 man/glmnet.external.validate.internal.Rd | 1 man/glmnet.survcurve.Rd | 1 man/glmnet.tune.alpha.Rd | 1 man/glmnet.validate.internal.Rd | 1 man/hdcox.aenet.Rd | 13 man/hdcox.alasso.Rd | 8 man/hdcox.enet.Rd | 8 man/hdcox.flasso.Rd | 13 man/hdcox.lasso.Rd | 8 man/hdcox.mcp.Rd | 9 man/hdcox.mnet.Rd | 15 man/hdcox.scad.Rd | 13 man/hdcox.snet.Rd | 15 man/hdnom-package.Rd | 1 man/hdnom.calibrate.Rd | 47 - man/hdnom.calibrate.internal.true.Rd | 1 man/hdnom.compare.calibrate.Rd | 11 man/hdnom.compare.validate.Rd | 10 man/hdnom.external.calibrate.Rd | 14 man/hdnom.external.calibrate.internal.true.Rd | 1 man/hdnom.external.validate.Rd | 15 man/hdnom.kmplot.Rd | 28 man/hdnom.logrank.Rd | 22 man/hdnom.nomogram.Rd | 8 man/hdnom.validate.Rd | 34 man/hdnom.varinfo.Rd | 1 man/kmplot.Rd | 1 man/ncvreg.basesurv.Rd | 1 man/ncvreg.calibrate.internal.pred.Rd | 1 man/ncvreg.external.calibrate.internal.pred.Rd | 1 man/ncvreg.external.validate.internal.Rd | 1 man/ncvreg.survcurve.Rd | 1 man/ncvreg.tune.gamma.Rd | 1 man/ncvreg.tune.gamma.alpha.Rd | 1 man/ncvreg.validate.internal.Rd | 1 man/palette.aaas.Rd | 1 man/palette.jco.Rd | 1 man/palette.lancet.Rd | 1 man/palette.npg.Rd | 1 man/penalized.basesurv.Rd | 1 man/penalized.calibrate.internal.pred.Rd | 1 man/penalized.external.calibrate.internal.pred.Rd | 1 man/penalized.external.validate.internal.Rd | 1 man/penalized.survcurve.Rd | 1 man/penalized.tune.lambda.Rd | 1 man/penalized.validate.internal.Rd | 1 man/plot.hdnom.calibrate.Rd | 1 man/plot.hdnom.compare.calibrate.Rd | 1 man/plot.hdnom.compare.validate.Rd | 1 man/plot.hdnom.external.calibrate.Rd | 1 man/plot.hdnom.external.validate.Rd | 1 man/plot.hdnom.nomogram.Rd | 1 man/plot.hdnom.validate.Rd | 1 man/predict.hdcox.model.Rd | 1 man/print.hdcox.model.Rd | 1 man/print.hdnom.calibrate.Rd | 1 man/print.hdnom.compare.calibrate.Rd | 1 man/print.hdnom.compare.validate.Rd | 1 man/print.hdnom.external.calibrate.Rd | 1 man/print.hdnom.external.validate.Rd | 1 man/print.hdnom.nomogram.Rd | 1 man/print.hdnom.validate.Rd | 1 man/smart.Rd | 1 man/smarto.Rd | 1 man/summary.hdnom.calibrate.Rd | 1 man/summary.hdnom.compare.calibrate.Rd | 1 man/summary.hdnom.compare.validate.Rd | 1 man/summary.hdnom.external.calibrate.Rd | 1 man/summary.hdnom.external.validate.Rd | 1 man/summary.hdnom.validate.Rd | 1 vignettes/hdnom.Rmd | 6 91 files changed, 2499 insertions(+), 2381 deletions(-)
Title: Generalized Dissimilarity Modeling
Description: A toolkit with functions to fit, plot, and summarize Generalized Dissimilarity Models (Ferrier et al. 2007, <doi:10.1111/j.1472-4642.2007.00341.x>).
Author: Glenn Manion, Matthew Lisk, Simon Ferrier, Diego Nieto-Lugilde, Karel Mokany, Matthew C. Fitzpatrick
Maintainer: Matthew C. Fitzpatrick <mfitzpatrick@umces.edu>
Diff between gdm versions 1.3.1 dated 2017-02-27 and 1.3.2 dated 2017-03-25
DESCRIPTION | 8 MD5 | 10 R/GDM_Table_Funcs.R | 4355 ++++++++++++++++++++++++------------------------- src/Gdmlib.cpp | 12 src/NNLSDoubleCore.cpp | 2 src/NNLS_Double.cpp | 2 6 files changed, 2198 insertions(+), 2191 deletions(-)
Title: Ensemble Partial Least Squares Regression
Description: An algorithmic framework for measuring feature importance,
outlier detection, model applicability domain evaluation,
and ensemble predictive modeling with (sparse)
partial least squares regressions.
Author: Nan Xiao [aut, cre],
Dongsheng Cao [aut],
Miaozhu Li [aut],
Qingsong Xu [aut]
Maintainer: Nan Xiao <me@nanx.me>
Diff between enpls versions 5.7 dated 2017-01-05 and 5.8 dated 2017-03-25
DESCRIPTION | 10 +-- MD5 | 142 ++++++++++++++++++++++----------------------- NEWS.md | 12 +++ R/cv.enpls.R | 18 +++-- R/cv.enspls.R | 18 +++-- R/enpls.ad.R | 124 ++++++++++++++++++++------------------- R/enpls.fit.R | 73 ++++++++++++----------- R/enpls.fs.R | 79 +++++++++++++------------ R/enpls.od.R | 81 +++++++++++++------------ R/enspls.ad.R | 124 +++++++++++++++++++++------------------ R/enspls.fit.R | 79 +++++++++++++------------ R/enspls.fs.R | 70 ++++++++++++---------- R/enspls.od.R | 91 +++++++++++++++------------- R/evaluate.R | 6 - R/plot.enpls.R | 93 ++++++++++++++++------------- R/plot.enspls.R | 89 +++++++++++++++------------- R/predict.enpls.R | 2 R/predict.enspls.R | 2 R/print.enpls.R | 36 ++++++----- R/print.enspls.R | 53 +++++++++------- README.md | 19 ++---- build/vignette.rds |binary inst/doc/enpls.Rmd | 4 - inst/doc/enpls.html | 12 +-- man/alkanes.Rd | 1 man/cv.enpls.Rd | 7 -- man/cv.enspls.Rd | 7 -- man/enpls-package.Rd | 1 man/enpls.ad.Rd | 22 +++--- man/enpls.ad.core.fit.Rd | 1 man/enpls.ad.core.pred.Rd | 1 man/enpls.fit.Rd | 7 -- man/enpls.fit.core.Rd | 1 man/enpls.fs.Rd | 7 -- man/enpls.fs.core.Rd | 1 man/enpls.mae.Rd | 3 man/enpls.od.Rd | 7 -- man/enpls.od.core.Rd | 1 man/enpls.rmse.Rd | 3 man/enpls.rmsle.Rd | 3 man/enspls.ad.Rd | 24 ++++--- man/enspls.ad.core.fit.Rd | 1 man/enspls.ad.core.pred.Rd | 1 man/enspls.fit.Rd | 12 +-- man/enspls.fit.core.Rd | 1 man/enspls.fs.Rd | 7 -- man/enspls.fs.core.Rd | 1 man/enspls.od.Rd | 12 +-- man/enspls.od.core.Rd | 1 man/logd1k.Rd | 1 man/plot.cv.enpls.Rd | 7 -- man/plot.cv.enspls.Rd | 7 -- man/plot.enpls.ad.Rd | 26 ++++---- man/plot.enpls.fs.Rd | 7 -- man/plot.enpls.od.Rd | 7 -- man/plot.enspls.ad.Rd | 28 ++++---- man/plot.enspls.fs.Rd | 7 -- man/plot.enspls.od.Rd | 7 -- man/predict.enpls.fit.Rd | 7 -- man/predict.enspls.fit.Rd | 7 -- man/print.cv.enpls.Rd | 7 -- man/print.cv.enspls.Rd | 7 -- man/print.enpls.ad.Rd | 24 ++++--- man/print.enpls.fit.Rd | 7 -- man/print.enpls.fs.Rd | 7 -- man/print.enpls.od.Rd | 7 -- man/print.enspls.ad.Rd | 26 ++++---- man/print.enspls.fit.Rd | 12 +-- man/print.enspls.fs.Rd | 12 +-- man/print.enspls.od.Rd | 12 +-- man/rgb2alpha.Rd | 1 vignettes/enpls.Rmd | 4 - 72 files changed, 844 insertions(+), 763 deletions(-)
Title: Spatial Modeling on Stream Networks
Description: Spatial statistical modeling and prediction for data on stream networks, including models based on in-stream distance. Models are created using moving average constructions. Spatial linear models, including explanatory variables, can be fit with (restricted) maximum likelihood. Mapping and other graphical functions are included.
Author: Jay Ver Hoef and Erin Peterson
Maintainer: Jay Ver Hoef <ver.hoef@SpatialStreamNetworks.com>
Diff between SSN versions 1.1.8 dated 2016-10-15 and 1.1.9 dated 2017-03-25
SSN-1.1.8/SSN/R/FCSD.R |only SSN-1.1.8/SSN/R/FCSD01.R |only SSN-1.1.8/SSN/R/FUDJ.R |only SSN-1.1.8/SSN/R/FUSD.R |only SSN-1.1.8/SSN/R/reachNeiSSN.R |only SSN-1.1.8/SSN/build |only SSN-1.1.8/SSN/inst/doc/SSN.Rnw |only SSN-1.1.8/SSN/inst/doc/STARS.Rnw |only SSN-1.1.8/SSN/man/FCSD.Rd |only SSN-1.1.8/SSN/man/FCSD01.Rd |only SSN-1.1.8/SSN/man/FUDJ.Rd |only SSN-1.1.8/SSN/man/FUSD.Rd |only SSN-1.1.8/SSN/man/reachNeiSSN.Rd |only SSN-1.1.9/SSN/DESCRIPTION | 14 - SSN-1.1.9/SSN/MD5 | 52 ++--- SSN-1.1.9/SSN/NAMESPACE | 14 - SSN-1.1.9/SSN/R/amongPredsDistMat.R |only SSN-1.1.9/SSN/R/createDistMat.R | 274 ++++++++----------------------- SSN-1.1.9/SSN/R/createSSN.R | 172 +++++++++---------- SSN-1.1.9/SSN/R/getConfusionMat.R |only SSN-1.1.9/SSN/R/getObsRelationshipsDF.R |only SSN-1.1.9/SSN/R/getPredRelationshipsDF.R |only SSN-1.1.9/SSN/R/importPredpts.R | 3 SSN-1.1.9/SSN/R/importSSN.R | 15 - SSN-1.1.9/SSN/R/locationsDF.R |only SSN-1.1.9/SSN/R/writeSSN.r | 10 - SSN-1.1.9/SSN/data/mf04.rda |binary SSN-1.1.9/SSN/data/mf04p.rda |binary SSN-1.1.9/SSN/data/modelFits.rda |binary SSN-1.1.9/SSN/inst/doc/SSN.R |only SSN-1.1.9/SSN/inst/doc/SSN.pdf |binary SSN-1.1.9/SSN/inst/doc/STARS.pdf |binary SSN-1.1.9/SSN/inst/vignRnw |only SSN-1.1.9/SSN/man/SimulateOnSSN.Rd | 94 +++++----- SSN-1.1.9/SSN/man/getConfusionMat.Rd |only SSN-1.1.9/SSN/man/updatePath.Rd | 28 +++ SSN-1.1.9/SSN/vignettes/STARS.Rnw | 17 + 37 files changed, 306 insertions(+), 387 deletions(-)
Title: Diverse Basic Statistical and Graphical Functions
Description: Contains diverse more or less complicated functions, written to simplify user's life: simplifications of existing functions, basic but not implemented tests, easy-to-use tools, bridges between functions of different packages... All functions are presented in the French book 'Aide-memoire de statistique appliquee a la biologie', written by the same author and available on CRAN.
Author: Maxime Hervé
Maintainer: Maxime Hervé <mx.herve@gmail.com>
Diff between RVAideMemoire versions 0.9-63 dated 2017-02-24 and 0.9-64 dated 2017-03-25
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++++-------- NAMESPACE | 2 +- NEWS | 7 ++++++- R/median.factor.R | 27 ++++++++++++++++++++------- R/pairwise.perm.var.test.R |only R/pairwise.var.test.R |only R/plotresid.R | 25 ++++++++++++++++++++++++- R/zzz.R | 2 +- man/RVAideMemoire-package.Rd | 4 ++-- man/pairwise.perm.var.test.Rd |only man/pairwise.var.test.Rd |only man/plotresid.Rd | 6 +++--- 13 files changed, 73 insertions(+), 28 deletions(-)