Title: RDF Library Bindings in R
Description: Provides methods to parse, query and serialize information
stored in the Resource Description Framework (RDF). RDF is described at <http://www.w3.org/TR/rdf-primer>.
This package supports RDF by implementing an R interface to the Redland RDF C library,
described at <http://librdf.org/docs/api/index.html>. In brief, RDF provides a structured graph
consisting of Statements composed of Subject, Predicate, and Object Nodes.
Author: Matthew B. Jones [aut, cre],
Peter Slaughter [aut],
Jeroen Ooms [aut],
Carl Boettiger [aut],
Scott Chamberlain [aut],
David Beckett [cph],
University of Bristol [cph],
Regents of the University of California [cph]
Maintainer: Matthew B. Jones <jones@nceas.ucsb.edu>
Diff between redland versions 1.0.17-8 dated 2016-04-26 and 1.0.17-9 dated 2016-12-14
DESCRIPTION | 10 - MD5 | 17 +- NEWS | 8 README.md | 2 build/vignette.rds |binary cleanup |only configure | 4 inst/doc/redland_overview.Rmd | 24 -- inst/doc/redland_overview.html | 337 +++++++++++------------------------------ vignettes/redland_overview.Rmd | 2 10 files changed, 122 insertions(+), 282 deletions(-)
Title: Functions for Community Data and Ordinations
Description: A collection of functions useful in (vegetation) community analyses and ordinations, mainly to facilitate plotting and interpretation. Includes automatic species selection for ordination diagrams, species response curves and rank-abundance curves.
Author: Friedemann Goral [aut, cre],
Jenny Schellenberg [aut]
Maintainer: Friedemann Goral <fgoral@gwdg.de>
Diff between goeveg versions 0.2.0 dated 2016-06-21 and 0.3.0 dated 2016-12-14
DESCRIPTION | 10 +- MD5 | 16 ++-- NAMESPACE | 7 + NEWS.md | 5 + R/racurve.r | 4 + R/specresponse.R | 109 ++++++++++++++++++--------- R/specresponses.R | 202 +++++++++++++++++++++++++++++++-------------------- man/specresponse.Rd | 28 +++---- man/specresponses.Rd | 32 ++++---- 9 files changed, 253 insertions(+), 160 deletions(-)
Title: Color Space Manipulation
Description: Carries out mapping between assorted color spaces including
RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV),
CIELAB and polar CIELAB. Qualitative, sequential, and
diverging color palettes based on HCL colors are provided
along with an interactive palette picker (with either a Tcl/Tk
or a shiny GUI).
Author: Ross Ihaka [aut],
Paul Murrell [aut],
Kurt Hornik [aut],
Jason C. Fisher [aut],
Reto Stauffer [aut],
Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between colorspace versions 1.3-1 dated 2016-11-18 and 1.3-2 dated 2016-12-14
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 8 ++++++++ build/partial.rdb |binary inst/doc/hcl-colors.pdf |binary src/colorspace.c | 2 +- 6 files changed, 18 insertions(+), 10 deletions(-)
Title: Fast R Functions
Description: A collection of fast (utility) functions for data analysis. Column- and row- wise means, medians, variances, minimums, maximums, many t, F and G-square tests, many regressions (normal, logistic, Poisson), Mahalanobis distance are some of the many fast functions.
Author: Manos Papadakis, Michail Tsagris, Ioannis Tsamardinos, Matteo Fasiolo, Giorgos Borboudakis and John Burkardt
Maintainer: Manos Papadakis <papadakm95@gmail.com>
Diff between Rfast versions 1.7.1 dated 2016-12-03 and 1.7.2 dated 2016-12-14
Rfast-1.7.1/Rfast/src/sort_double.cpp |only Rfast-1.7.1/Rfast/src/sort_int.cpp |only Rfast-1.7.2/Rfast/DESCRIPTION | 8 +++--- Rfast-1.7.2/Rfast/MD5 | 34 ++++++++++++++--------------- Rfast-1.7.2/Rfast/R/anovas.R | 11 +++------ Rfast-1.7.2/Rfast/R/colrange.R | 2 - Rfast-1.7.2/Rfast/R/diri.nr2.R | 12 ++++------ Rfast-1.7.2/Rfast/R/ftests.R | 2 - Rfast-1.7.2/Rfast/R/score.multinomregs.R | 11 +++------ Rfast-1.7.2/Rfast/R/sort_unique.R | 4 +-- Rfast-1.7.2/Rfast/R/standardise.R | 7 ++--- Rfast-1.7.2/Rfast/R/univglms.R | 6 ++--- Rfast-1.7.2/Rfast/man/score.glms.Rd | 2 - Rfast-1.7.2/Rfast/src/col_min_max.cpp | 9 +++---- Rfast-1.7.2/Rfast/src/colmaxs.cpp | 15 ++++++------ Rfast-1.7.2/Rfast/src/colmins.cpp | 15 ++++++------ Rfast-1.7.2/Rfast/src/design_matrix.cpp | 2 + Rfast-1.7.2/Rfast/src/diri_nr_type2.cpp | 11 ++++----- Rfast-1.7.2/Rfast/src/sort_uniq_double.cpp |only Rfast-1.7.2/Rfast/src/sort_uniq_int.cpp |only 20 files changed, 72 insertions(+), 79 deletions(-)
Title: Functions to Support Extension Education Program Evaluation
Description: Functions and datasets to support "Summary and Analysis of
Extension Education Program Evaluation in R" and "An R
Companion for the Handbook of Biological Statistics".
Vignettes are available at <http://rcompanion.org>.
Author: Salvatore Mangiafico [aut, cre]
Maintainer: Salvatore Mangiafico <mangiafico@njaes.rutgers.edu>
Diff between rcompanion versions 1.1.3 dated 2016-11-14 and 1.2.0 dated 2016-12-14
DESCRIPTION | 8 ++++---- MD5 | 10 +++++++--- NAMESPACE | 2 ++ R/Data.R | 12 ++++++++++++ R/pairwiseOrdinalIndependence.r |only data/Breakfast.rda |only man/Breakfast.Rd |only man/pairwiseOrdinalIndependence.Rd |only 8 files changed, 25 insertions(+), 7 deletions(-)
Title: Flexible BUGS-Compatible System for Hierarchical Statistical
Modeling and Algorithm Development
Description: Flexible application of algorithms to models specified in the BUGS
language. Algorithms can be written in the NIMBLE language and made available to
any model.
Author: Perry de Valpine, Christopher Paciorek, Daniel Turek, Cliff Anderson-
Bergman, Duncan Temple Lang
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between nimble versions 0.6-2 dated 2016-11-23 and 0.6-3 dated 2016-12-14
DESCRIPTION | 6 MD5 | 200 ++++++++++++++-------------- NEWS | 14 + R/BUGS_BUGSdecl.R | 2 R/MCEM_build.R | 3 R/distributions_processInputList.R | 29 ++++ R/nimbleFunction_Rexecution.R | 9 - man/BUGSdeclClass-class.Rd | 2 man/Categorical.Rd | 2 man/CmodelBaseClass-class.Rd | 2 man/CnimbleFunctionBase-class.Rd | 2 man/Constraint.Rd | 2 man/Dirichlet.Rd | 2 man/Exponential.Rd | 2 man/Interval.Rd | 2 man/MCMCconf-class.Rd | 2 man/MCMCsuite.Rd | 2 man/MCMCsuiteClass-class.Rd | 2 man/Multinomial.Rd | 2 man/Multivariate-t.Rd | 2 man/MultivariateNormal.Rd | 2 man/Rmatrix2mvOneVar.Rd | 2 man/RmodelBaseClass-class.Rd | 2 man/Wishart.Rd | 2 man/asRow.Rd | 2 man/autoBlock.Rd | 2 man/buildAuxiliaryFilter.Rd | 2 man/buildBootstrapFilter.Rd | 2 man/buildEnsembleKF.Rd | 2 man/buildLiuWestFilter.Rd | 2 man/buildMCEM.Rd | 2 man/buildMCMC.Rd | 2 man/checkInterrupt.Rd | 2 man/codeBlockClass-class.Rd | 2 man/combine_MCMC_comparison_results.Rd | 2 man/compareMCMCs.Rd | 2 man/compileNimble.Rd | 2 man/configureMCMC.Rd | 2 man/decide.Rd | 2 man/decideAndJump.Rd | 2 man/declare.Rd | 2 man/deregisterDistributions.Rd | 2 man/distributionInfo.Rd | 2 man/getBUGSexampleDir.Rd | 2 man/getBound.Rd | 2 man/getDefinition.Rd | 2 man/getLoadingNamespace.Rd | 2 man/getNimbleOption.Rd | 2 man/getParam.Rd | 2 man/getsize.Rd | 2 man/identityMatrix.Rd | 2 man/initializeModel.Rd | 2 man/is.nf.Rd | 2 man/makeBoundInfo.Rd | 2 man/makeParamInfo.Rd | 2 man/make_MCMC_comparison_pages.Rd | 2 man/modelBaseClass-class.Rd | 2 man/modelDefClass-class.Rd | 2 man/modelValues.Rd | 2 man/modelValuesBaseClass-class.Rd | 2 man/modelValuesConf.Rd | 2 man/nfMethod.Rd | 2 man/nfVar.Rd | 2 man/nimArray.Rd | 2 man/nimCat.Rd | 2 man/nimCopy.Rd | 2 man/nimDim.Rd | 2 man/nimInteger.Rd | 2 man/nimMatrix.Rd | 2 man/nimNumeric.Rd | 2 man/nimPrint.Rd | 2 man/nimStop.Rd | 2 man/nimbleCode.Rd | 2 man/nimbleFunction.Rd | 2 man/nimbleFunctionBase-class.Rd | 2 man/nimbleFunctionList-class.Rd | 2 man/nimbleFunctionVirtual.Rd | 2 man/nimbleModel.Rd | 2 man/nimbleOptions.Rd | 2 man/nodeFunctions.Rd | 2 man/rankSample.Rd | 11 - man/readBUGSmodel.Rd | 2 man/registerDistributions.Rd | 31 ++++ man/rename_MCMC_comparison_method.Rd | 2 man/reshape_comparison_results.Rd | 2 man/resize.Rd | 2 man/run.time.Rd | 2 man/runMCMC.Rd | 2 man/samplers.Rd | 2 man/setAndCalculate.Rd | 2 man/setAndCalculateOne.Rd | 2 man/setSize.Rd | 2 man/setupOutputs.Rd | 2 man/simNodes.Rd | 2 man/simNodesMV.Rd | 2 man/singleVarAccessClass-class.Rd | 2 man/t.Rd | 2 man/testBUGSmodel.Rd | 2 man/updateMCMCcomparisonWithHighOrderESS.Rd | 2 man/valueInCompiledNimbleFunction.Rd | 2 man/values.Rd | 2 101 files changed, 279 insertions(+), 210 deletions(-)
Title: Wegener Center Climate Uncertainty Explorer
Description: Methods to calculate and interpret climate change signals and time series from climate multi-model ensembles. Climate model output in binary 'NetCDF' format is read in and aggregated over a specified region to a data.frame for statistical analysis. Global Circulation Models, as the 'CMIP5' simulations, can be read in the same way as Regional Climate Models, as e.g. the 'CORDEX' or 'ENSEMBLES' simulations. The package has been developed at the 'Wegener Center for Climate and Global Change' at the University of Graz, Austria.
Author: Thomas Mendlik [aut, cre], Georg Heinrich [aut], Armin Leuprecht [aut], Andreas Gobiet [ths]
Maintainer: Thomas Mendlik <thomas.mendlik@uni-graz.at>
Diff between wux versions 2.2-0 dated 2016-01-13 and 2.2-1 dated 2016-12-14
DESCRIPTION | 8 ++++---- MD5 | 33 +++++++++++++++++---------------- R/ReadGridFile.R | 6 +++--- R/ReadNetCdf.R | 4 ++-- R/ReadNetCdfTimeData.R | 4 ++-- R/models2wuxAggregateTemporal.R | 6 +++--- data/CMIP5_example_changesignal.rda |binary data/alpinesummer.rda |binary data/cmip3_2050.rda |binary data/cmip3_2100.rda |binary data/cmip5_2050.rda |binary data/cmip5_2100.rda |binary data/ensembles.rda |binary data/ensembles_gcms.rda |binary data/modelinput_test.rda |binary data/userinput_CMIP5_changesignal.rda |binary data/userinput_CMIP5_timeseries.rda |binary inst |only 18 files changed, 31 insertions(+), 30 deletions(-)
Title: A Tool for Downloading Functional Traits Data for Plant Species
Description: Plant ecologists often need to collect "traits" data
about plant species which are often scattered among various
databases: TR8 contains a set of tools which take care of
automatically retrieving some of those functional traits data
for plant species from publicly available databases (Biolflor,
The Ecological Flora of the British Isles, LEDA traitbase, Ellenberg
values for Italian Flora, Mycorrhizal intensity databases, Catminat, BROT,
PLANTS, Jepson Flora Project).
The TR8 name, inspired by "car plates" jokes, was chosen since
it both reminds of the main object of the package and is
extremely short to type.
Author: Gionata Bocci <boccigionata@gmail.com>
Maintainer: Gionata Bocci <boccigionata@gmail.com>
Diff between TR8 versions 0.9.14 dated 2016-03-31 and 0.9.15 dated 2016-12-14
DESCRIPTION | 8 +-- MD5 | 64 +++++++++++++++------------ NAMESPACE | 1 NEWS | 25 ++++++++-- R/biolflor.R | 10 +++- R/catminat.R | 18 ++++++- R/create_brico_ref.R | 2 R/ecoflora.R | 9 ++- R/eflora.R | 50 ++++++++++++--------- R/generate_biolflor_lu.R |only R/imkerbond.R |only R/leda_general.R | 5 +- R/tr8.R | 23 +++++---- R/tr8_gui.R | 7 ++- R/tr8_setup.R |only build/vignette.rds |binary data/available_tr8.rda |binary data/biolflor_lookup.rda |binary data/column_list.rda |binary data/imkerbond_data.rda |only data/leda_lookup.rda |binary data/pignatti.rda |binary data/ref_PLANTS.rda |binary data/traits_Biolflor.rda |binary data/traits_eco.rda |binary inst/doc/Expanding_TR8.pdf |binary inst/doc/TR8.R | 21 ++++++++- inst/doc/TR8.Rnw | 53 +++++++++++++++++++++- inst/doc/TR8.pdf |binary inst/doc/TR8_workflow.pdf |binary man/TR8-package.Rd | 2 man/imkerbond_check.Rd |only man/tr8.Rd | 27 ++++++++++- man/tr8_setup.Rd |only vignettes/TR8.Rnw | 53 +++++++++++++++++++++- vignettes/temp.ps | 105 ++++++++++++++++++--------------------------- 36 files changed, 329 insertions(+), 154 deletions(-)
Title: Bayesian Modeling and Analysis of Spatially Correlated Survival
Data
Description: Provides several Bayesian survival models for spatial/non-spatial survival data: marginal Bayesian Nonparametric models, marginal Bayesian proportional hazards models, generalized accelerated failure time frailty models, and standard semiparametric frailty models within the context of proportional hazards, proportional odds and accelerated failure time.
Author: Haiming Zhou <zhouh@niu.edu> and Tim Hanson <hansont@stat.sc.edu>
Maintainer: Haiming Zhou <zhouh@niu.edu>
Diff between spBayesSurv versions 1.0.5 dated 2016-10-10 and 1.0.6 dated 2016-12-14
DESCRIPTION | 10 MD5 | 38 R/SuperSurvRegBayes.R | 9 R/frailtyGAFT.R | 1050 ++++++++++----------- R/indeptCoxph.R | 5 R/spCopulaCoxph.R | 5 R/survregbayes.R | 1879 +++++++++++++++++++-------------------- R/survregbayes2.R | 1421 ++++++++++++++--------------- man/SuperSurvRegBayes.Rd | 16 man/anovaDDP.Rd | 23 man/frailtyGAFT.Rd | 413 ++++---- man/indeptCoxph.Rd | 22 man/spCopulaCoxph.Rd | 24 man/spCopulaDDP.Rd | 25 man/survregbayes.Rd | 425 ++++---- man/survregbayes2.Rd | 384 ++++--- src/spSurv_AFT_BP.cpp | 12 src/spSurv_PH_BP.cpp | 12 src/spSurv_PO_BP.cpp | 12 src/spSurv_frailty_GRF_LDTFP.cpp | 3 20 files changed, 2915 insertions(+), 2873 deletions(-)
Title: R Markdown Format for 'reveal.js' Presentations
Description: R Markdown format for 'reveal.js' presentations, a framework
for easily creating beautiful presentations using HTML.
Author: Hakim El Hattab [aut, cph] (reveal.js-3.2.0,
https://github.com/hakimel/reveal.js),
Asvin Goel [ctb, cph] (chalkboard plugin),
JJ Allaire [aut, cre],
RStudio [cph]
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between revealjs versions 0.7 dated 2016-08-01 and 0.8 dated 2016-12-14
DESCRIPTION | 13 +- MD5 | 16 ++- R/revealjs_presentation.R | 33 ++++++- inst/NEWS | 6 + inst/reveal.js-3.3.0/plugin/chalkboard |only inst/rmarkdown/templates/revealjs_presentation/resources/default.html | 44 ++++++++++ man/revealjs_presentation.Rd | 5 - 7 files changed, 101 insertions(+), 16 deletions(-)
Title: Relationship Inference for DNA Mixtures
Description: Makes relationship inference involving DNA mixtures with unknown profiles.
Author: Navreet Kaur, Thore Egeland, Guro Dorum
Maintainer: Guro Dorum <guro.dorum@gmail.com>
Diff between relMix versions 1.2 dated 2016-09-18 and 1.2.2 dated 2016-12-14
relMix-1.2.2/relMix/DESCRIPTION | 8 - relMix-1.2.2/relMix/MD5 | 43 ++++----- relMix-1.2.2/relMix/R/relMix.R | 34 ++++--- relMix-1.2.2/relMix/R/relMixGUI.R | 4 relMix-1.2.2/relMix/inst/doc/relMixVignette.R | 42 --------- relMix-1.2.2/relMix/inst/doc/relMixVignette.Rmd | 79 ----------------- relMix-1.2.2/relMix/inst/doc/relMixVignette.html | 72 --------------- relMix-1.2.2/relMix/vignettes/contributors_ex1.png |only relMix-1.2.2/relMix/vignettes/contributors_ex2.png |only relMix-1.2.2/relMix/vignettes/database_options.png |only relMix-1.2.2/relMix/vignettes/database_options_ex2.png |only relMix-1.2.2/relMix/vignettes/dropout_ex1.png |only relMix-1.2.2/relMix/vignettes/dropout_ex2.png |only relMix-1.2.2/relMix/vignettes/mutations_ex2.png |only relMix-1.2.2/relMix/vignettes/pedigrees_ex1.png |only relMix-1.2.2/relMix/vignettes/relMixVignette.Rmd | 79 ----------------- relMix-1.2.2/relMix/vignettes/relMix_screenshot.png |only relMix-1.2.2/relMix/vignettes/results_ex1.png |only relMix-1.2.2/relMix/vignettes/results_ex2.png |only relMix-1.2.2/relMix/vignettes/scaling_ex2.png |only relMix-1.2/relMix/vignettes/contributors.PNG |only relMix-1.2/relMix/vignettes/contributors_ex1.PNG |only relMix-1.2/relMix/vignettes/contributors_ex2.PNG |only relMix-1.2/relMix/vignettes/custom_ped_screenshot.png |only relMix-1.2/relMix/vignettes/database.PNG |only relMix-1.2/relMix/vignettes/database_options.PNG |only relMix-1.2/relMix/vignettes/database_options_ex2.PNG |only relMix-1.2/relMix/vignettes/dropout_ex1.PNG |only relMix-1.2/relMix/vignettes/dropout_ex2.PNG |only relMix-1.2/relMix/vignettes/import_data.png |only relMix-1.2/relMix/vignettes/mutations.png |only relMix-1.2/relMix/vignettes/mutations_ex2.PNG |only relMix-1.2/relMix/vignettes/pedigrees_ex1.PNG |only relMix-1.2/relMix/vignettes/relMix_screenshot.PNG |only relMix-1.2/relMix/vignettes/results_ex1.PNG |only relMix-1.2/relMix/vignettes/results_ex2.PNG |only relMix-1.2/relMix/vignettes/scaling_ex2.PNG |only 37 files changed, 52 insertions(+), 309 deletions(-)
Title: Terminal Progress Bars
Description: Configurable Progress bars, they may include percentage,
elapsed time, and/or the estimated completion time. They work in
terminals, in 'Emacs' 'ESS', 'RStudio', 'Windows' 'Rgui' and the
'macOS' 'R.app'. The package also provides a 'C++' 'API', that works
with or without 'Rcpp'.
Author: Gábor Csárdi [aut, cre], Rich FitzJohn [aut]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between progress versions 1.1.1 dated 2016-12-13 and 1.1.2 dated 2016-12-14
progress-1.1.1/progress/tests/testthat/test-overhead.R |only progress-1.1.2/progress/DESCRIPTION | 8 ++++---- progress-1.1.2/progress/MD5 | 7 +++---- progress-1.1.2/progress/inst/NEWS.md | 4 ++++ progress-1.1.2/progress/tests/testthat.R | 8 +++++--- 5 files changed, 16 insertions(+), 11 deletions(-)
Title: Simulation and Estimation of the Neyman-Scott Type Spatial
Cluster Models
Description: Simulation and estimation for Neyman-Scott spatial cluster point process models and their extensions. For estimating parameters by the simplex method, parallel computation using OpenMP application programming interface is available.
Author: The Institute of Statistical Mathematics, based on the program by Ushio Tanaka
Maintainer: Masami Saga <msaga@mtb.biglobe.ne.jp>
Diff between NScluster versions 1.0.2 dated 2014-08-09 and 1.1.0 dated 2016-12-14
NScluster-1.0.2/NScluster/inst/doc/NScluster-manual.pdf |only NScluster-1.0.2/NScluster/inst/doc/index.html |only NScluster-1.0.2/NScluster/src/Simplex-IPf.f |only NScluster-1.0.2/NScluster/src/Simplex-Thomasf.f |only NScluster-1.0.2/NScluster/src/Simplex-TypeAf.f |only NScluster-1.0.2/NScluster/src/Simplex-TypeBf.f |only NScluster-1.0.2/NScluster/src/Simplex-TypeCf.f |only NScluster-1.1.0/NScluster/DESCRIPTION | 13 NScluster-1.1.0/NScluster/MD5 | 87 - NScluster-1.1.0/NScluster/NAMESPACE | 4 NScluster-1.1.0/NScluster/R/NScluster.R | 1346 ++++++++-------- NScluster-1.1.0/NScluster/man/NScluster-package.Rd | 3 NScluster-1.1.0/NScluster/man/PalmIP.Rd | 10 NScluster-1.1.0/NScluster/man/PalmThomas.Rd | 10 NScluster-1.1.0/NScluster/man/PalmTypeA.Rd | 10 NScluster-1.1.0/NScluster/man/PalmTypeB.Rd | 10 NScluster-1.1.0/NScluster/man/PalmTypeC.Rd | 10 NScluster-1.1.0/NScluster/man/SimplexIP.Rd | 15 NScluster-1.1.0/NScluster/man/SimplexThomas.Rd | 15 NScluster-1.1.0/NScluster/man/SimplexTypeA.Rd | 15 NScluster-1.1.0/NScluster/man/SimplexTypeB.Rd | 15 NScluster-1.1.0/NScluster/man/SimplexTypeC.Rd | 15 NScluster-1.1.0/NScluster/man/SimulateIP.Rd | 6 NScluster-1.1.0/NScluster/man/SimulateThomas.Rd | 6 NScluster-1.1.0/NScluster/man/SimulateTypeA.Rd | 6 NScluster-1.1.0/NScluster/man/SimulateTypeB.Rd | 6 NScluster-1.1.0/NScluster/man/SimulateTypeC.Rd | 6 NScluster-1.1.0/NScluster/man/setOmpNumThreads.Rd |only NScluster-1.1.0/NScluster/src/IP-Simulate.c | 4 NScluster-1.1.0/NScluster/src/IP-Simulatef.f | 28 NScluster-1.1.0/NScluster/src/Makevars |only NScluster-1.1.0/NScluster/src/Palm-IPf.f | 49 NScluster-1.1.0/NScluster/src/Palm-Thomasf.f | 25 NScluster-1.1.0/NScluster/src/Palm-TypeAf.f | 49 NScluster-1.1.0/NScluster/src/Palm-TypeBf.f | 18 NScluster-1.1.0/NScluster/src/Palm-TypeCf.f | 18 NScluster-1.1.0/NScluster/src/Simplex-IPfp.f |only NScluster-1.1.0/NScluster/src/Simplex-Thomasfp.f |only NScluster-1.1.0/NScluster/src/Simplex-TypeAfp.f |only NScluster-1.1.0/NScluster/src/Simplex-TypeBfp.f |only NScluster-1.1.0/NScluster/src/Simplex-TypeCfp.f |only NScluster-1.1.0/NScluster/src/Thomas-Simulate.c | 4 NScluster-1.1.0/NScluster/src/Thomas-Simulatef.f | 29 NScluster-1.1.0/NScluster/src/TypeA-Simulate.c | 4 NScluster-1.1.0/NScluster/src/TypeA-Simulatef.f | 35 NScluster-1.1.0/NScluster/src/TypeB-Simulate.c | 4 NScluster-1.1.0/NScluster/src/TypeB-Simulatef.f | 50 NScluster-1.1.0/NScluster/src/TypeC-Simulate.c | 4 NScluster-1.1.0/NScluster/src/TypeC-Simulatef.f | 50 NScluster-1.1.0/NScluster/src/comsub.f | 248 +- NScluster-1.1.0/NScluster/src/comsubOMP.f |only NScluster-1.1.0/NScluster/src/setnthread.c |only NScluster-1.1.0/NScluster/src/setnthreadf.f |only 53 files changed, 1214 insertions(+), 1013 deletions(-)
Title: Extract Equations from a Nomogram
Description:
A nomogram can not be easily applied,
because it is difficult to calculate the points or even the survival probability.
The package, including a function of nomogramEx(),
is to extract the polynomial equations to calculate the points of each variable,
and the survival probability corresponding to the total points.
Author: Zhicheng Du, Yuantao Hao
Maintainer: Zhicheng Du<dgdzc@hotmail.com>
Diff between nomogramEx versions 1.0 dated 2016-11-30 and 2.0 dated 2016-12-14
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/nomogramEx.R | 44 ++++++++++++++++++++++++++------------------ man/nomogramEx.Rd | 10 +++++++--- 4 files changed, 39 insertions(+), 27 deletions(-)
Title: Data.frame-Like Operations on Sparse and Dense Matrix Objects
Description: Implements data manipulation methods such as cast, aggregate, and merge/join for Matrix and matrix-like objects.
Author: Craig Varrichio <canthony427@gmail.com>
Maintainer: Craig Varrichio <canthony427@gmail.com>
Diff between Matrix.utils versions 0.9.3 dated 2016-09-22 and 0.9.4 dated 2016-12-14
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/Matrix.utils.R | 36 ++++++++++++++++++++++++------------ man/aggregate.Matrix.Rd | 35 ++++++++++++++++++++++++----------- tests/testthat/tests.R | 2 +- 5 files changed, 57 insertions(+), 32 deletions(-)
Title: Generalized Joint Attribute Modeling
Description: Analyzes joint attribute data (e.g., species abundance) that are combinations of continuous and discrete data with Gibbs sampling.
Author: James S. Clark, Daniel Taylor-Rodriquez
Maintainer: James S. Clark <jimclark@duke.edu>
Diff between gjam versions 2.1 dated 2016-11-29 and 2.1.1 dated 2016-12-14
gjam-2.1.1/gjam/DESCRIPTION | 8 gjam-2.1.1/gjam/MD5 | 58 - gjam-2.1.1/gjam/NAMESPACE | 4 gjam-2.1.1/gjam/R/gjam.r |only gjam-2.1.1/gjam/R/gjamHfunctions.R | 41 - gjam-2.1.1/gjam/R/gjamPoints2Grid.R | 12 gjam-2.1.1/gjam/build/vignette.rds |binary gjam-2.1.1/gjam/inst/CITATION | 6 gjam-2.1.1/gjam/inst/doc/gjamVignette.R | 423 +++++++++++- gjam-2.1.1/gjam/inst/doc/gjamVignette.Rmd | 845 +++++++++++++++++++++--- gjam-2.1.1/gjam/inst/doc/gjamVignette.html | 864 +++++++++++++++++++------ gjam-2.1.1/gjam/man/gjam-package.Rd | 19 gjam-2.1.1/gjam/man/gjam.Rd |only gjam-2.1.1/gjam/man/gjamCensorY.Rd | 8 gjam-2.1.1/gjam/man/gjamDeZero.Rd | 2 gjam-2.1.1/gjam/man/gjamIIE.Rd | 8 gjam-2.1.1/gjam/man/gjamIIEplot.Rd | 4 gjam-2.1.1/gjam/man/gjamOrdination.Rd | 8 gjam-2.1.1/gjam/man/gjamPlot.Rd | 12 gjam-2.1.1/gjam/man/gjamPoints2Grid.Rd | 6 gjam-2.1.1/gjam/man/gjamPredict.Rd | 8 gjam-2.1.1/gjam/man/gjamReZero.Rd | 5 gjam-2.1.1/gjam/man/gjamSimData.Rd | 11 gjam-2.1.1/gjam/man/gjamSpec2Trait.Rd | 6 gjam-2.1.1/gjam/man/gjamTrimY.Rd | 4 gjam-2.1.1/gjam/vignettes/gjamVignette.Rmd | 845 +++++++++++++++++++++--- gjam-2.1/gjam/R/gjamGibbs.r |only gjam-2.1/gjam/inst/doc/gjamDimRedVignette.R |only gjam-2.1/gjam/inst/doc/gjamDimRedVignette.Rmd |only gjam-2.1/gjam/inst/doc/gjamDimRedVignette.html |only gjam-2.1/gjam/inst/doc/gjamTraitsVignette.R |only gjam-2.1/gjam/inst/doc/gjamTraitsVignette.Rmd |only gjam-2.1/gjam/inst/doc/gjamTraitsVignette.html |only gjam-2.1/gjam/man/gjamGibbs.Rd |only gjam-2.1/gjam/vignettes/gjamDimRedVignette.Rmd |only gjam-2.1/gjam/vignettes/gjamTraitsVignette.Rmd |only 36 files changed, 2657 insertions(+), 550 deletions(-)
Title: A Shiny Application for Reducing Elemental LA-ICPMS Data from
Solid Structures
Description: Aims to facilitate the reduction of elemental microchemistry data from solid-phase LA-ICPMS analysis (laser ablation inductive coupled plasma mass spectrometry). The elementR package provides a reactive and user friendly interface for conducting all steps needed for an optimal data reduction while leaving maximum control for user.
Author: Charlotte Sirot, Francois Guilhaumon, Franck Ferraton, Audrey Darnaude, Jacques Panfili, Amber Child
Maintainer: Charlotte Sirot <charlott.sirot@gmail.com>
Diff between elementR versions 1.1 dated 2016-08-30 and 1.2 dated 2016-12-14
DESCRIPTION | 8 MD5 | 10 R/App.R | 1778 ++++++++++++++++++++-------------------- R/classElementR_R6.R | 69 - inst/elementR_documentation.pdf |binary man/readData.Rd | 6 6 files changed, 982 insertions(+), 889 deletions(-)
Title: Dynamic Nomograms for Linear, Generalized Linear and
Proportional Hazard Models
Description: Demonstrate the results of a statistical model object as a dynamic nomogram in an 'RStudio' panel or web browser. Also, the generic DNbuilder function in this package provides a simple and straightforward way to build and publish a dynamic nomogram on the web to use the app independent of R. DynNom supports a variety of model objects; 'lm', 'glm', 'coxph' and also 'Ols', 'Glm', 'lrm', 'cph' models.
Author: Amirhossein Jalali, Davood Roshan, Alberto Alvarez-Iglesias, John Newell
Maintainer: Amirhossein Jalali <a.jalali2@nuigalway.ie>
Diff between DynNom versions 3.0.1 dated 2016-09-27 and 4.0 dated 2016-12-14
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++++++-- NAMESPACE | 4 ++++ R/DNbuilder-coxph.R |only R/DNbuilder-glm.R |only R/DNbuilder-lm.R |only R/DNbuilder.R |only man/DNbuilder.Rd |only man/DNbuilder.coxph.Rd |only man/DNbuilder.glm.Rd |only man/DNbuilder.lm.Rd |only 11 files changed, 18 insertions(+), 6 deletions(-)
Title: Time Series Regression
Description: Time series regression. The dyn class interfaces ts,
irts(), zoo() and zooreg() time series classes to lm(), glm(),
loess(), quantreg::rq(), MASS::rlm(), MCMCpack::MCMCregress(),
quantreg::rq(), randomForest::randomForest() and other regression
functions allowing those functions to be used with time series
including specifications that may contain lags, diffs and
missing values.
Author: G. Grothendieck
Maintainer: M. Leeds <markleeds2@gmail.com>
Diff between dyn versions 0.2-9.1 dated 2016-12-13 and 0.2-9.2 dated 2016-12-14
DESCRIPTION | 14 +++++++------- MD5 | 4 ++-- NEWS | 6 ++++++ 3 files changed, 15 insertions(+), 9 deletions(-)
Title: Clustering of Variables Around Latent Variables
Description: Functions for the clustering of variables around Latent Variables.
Each cluster of variables, which may be defined as a local or directional
cluster, is associated with a latent variable. External variables measured on
the same observations or/and additional information on the variables can be
taken into account. A "noise" cluster or sparse latent variables can also de
defined.
Author: Evelyne Vigneau [aut, cre],
Mingkun Chen [ctb]
Maintainer: Evelyne Vigneau <evelyne.vigneau@oniris-nantes.fr>
Diff between ClustVarLV versions 1.5.0 dated 2016-08-20 and 1.5.1 dated 2016-12-14
DESCRIPTION | 17 ++++--- MD5 | 56 +++++++++++------------ R/get_comp.R | 4 + R/get_load.R | 3 - R/get_partition.R | 4 - R/get_sparseload.R | 4 - R/imput_clv.R | 4 - R/stand_quali.R | 2 R/summary.clv.R | 12 ++--- inst/doc/Getting_started_with_ClustVarLV.Rmd | 2 inst/doc/Getting_started_with_ClustVarLV.html | 61 ++++++++++++++------------ man/CLV.Rd | 9 ++- man/CLV_kmeans.Rd | 14 ++--- man/LCLV.Rd | 8 +-- man/data_biplot.Rd | 2 man/get_comp.Rd | 12 ++--- man/get_load.Rd | 10 ++-- man/get_partition.Rd | 17 +++---- man/get_sparseload.Rd | 9 +-- man/imput_clv.Rd | 2 man/plot.clv.Rd | 6 +- man/plot.lclv.Rd | 6 +- man/plot_var.Rd | 3 - man/print.clv.Rd | 2 man/print.lclv.Rd | 2 man/stand_quali.Rd | 7 +- man/summary.clv.Rd | 4 - src/RcppExports.cpp | 39 ++++++++-------- vignettes/Getting_started_with_ClustVarLV.Rmd | 2 29 files changed, 172 insertions(+), 151 deletions(-)
Title: Spatial Implementation of Bayesian Networks and Mapping
Description: Package for the spatial implementation of Bayesian Networks and mapping in geographical space. It makes maps of expected value (or most likely state) given known and unknown conditions, maps of uncertainty measured as coefficient of variation or Shannon index (entropy), maps of probability associated to any states of any node of the network. Some additional features are provided as well: parallel processing options, data discretization routines and function wrappers designed for users with minimal knowledge of the R language. Outputs can be exported to any common GIS format. Development was funded by the European Union FP7 (2007-2013), under project ROBIN (agreement 283093).
Author: Dario Masante [aut, cre]
Maintainer: Dario Masante <dario.masante@gmail.com>
Diff between bnspatial versions 1.0 dated 2016-07-27 and 1.0.1 dated 2016-12-14
DESCRIPTION | 12 ++++----- MD5 | 26 ++++++++++---------- NEWS.md | 11 ++++++++ R/aoi.R | 7 +++-- R/extractByMask.R | 2 - R/loadNetwork.R | 2 - R/mapTarget.R | 4 +-- R/zzz.R | 14 ++++++++--- build/vignette.rds |binary inst/doc/bnspatial.Rmd | 9 +++---- inst/doc/bnspatial.html | 60 ++++++++++++++++++++++++------------------------ man/aoi.Rd | 2 - man/loadNetwork.Rd | 2 - vignettes/bnspatial.Rmd | 9 +++---- 14 files changed, 88 insertions(+), 72 deletions(-)
Title: Infrastructure for Computing with Basis Functions
Description: Some very simple infrastructure for basis functions.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between basefun versions 0.0-33 dated 2016-09-13 and 0.0-34 dated 2016-12-14
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/utils.R | 4 +++- inst/NEWS.Rd | 8 ++++++++ 4 files changed, 18 insertions(+), 8 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2009-09-06 1.1.8
2008-07-05 1.1.7
2006-12-10 1.1.5
Title: Simple, Multiple and Joint Correspondence Analysis
Description: Computation and visualization of simple, multiple and joint correspondence analysis.
Author: Michael Greenacre [aut], Oleg Nenadic [aut, cre], Michael Friendly [ctb]
Maintainer: Oleg Nenadic <onenadi@uni-goettingen.de>
Diff between ca versions 0.64 dated 2016-02-05 and 0.70 dated 2016-12-14
DESCRIPTION | 14 ++++++------ MD5 | 16 +++++++------- NEWS | 27 +++++++---------------- R/ca.r | 21 ++++++++++++------ R/mjca.r | 64 +++++++++++++++++++++++++++++++++++++++++++++++++++----- R/summary.ca.r | 8 +++++-- data/author.rda |binary data/smoke.rda |binary data/wg93.rda |binary 9 files changed, 102 insertions(+), 48 deletions(-)
Title: Tracking the Progress of Mc*pply with Progress Bar
Description: A light-weight package helps you track and visualize
the progress of parallel version of vectorized R functions (mc*apply).
The package works on *nix (Linux, Unix such as macOS) system only due to
the lack of fork() functionality, which is essential for mc*apply, on Windows.
Author: Kevin Kuang
Maintainer: Kevin kuang <kvn.kuang@mail.utoronto.ca>
Diff between pbmcapply versions 1.1.2 dated 2016-11-24 and 1.1.3 dated 2016-12-14
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/pbmclapply.R | 10 +++++++--- R/pbmcmapply.R | 8 ++++++-- man/pbmclapply.Rd | 32 ++++++++++++++++---------------- man/pbmcmapply.Rd | 30 +++++++++++++++--------------- 6 files changed, 52 insertions(+), 44 deletions(-)
Title: Multiple Mediation Analysis
Description: Used for general multiple mediation analysis.
The analysis method is described in Yu et al. (2014) <doi:10.4172/2155-6180.1000189> "General Multiple Mediation Analysis With an Application to Explore Racial Disparity in Breast Cancer Survival", published on Journal of Biometrics & Biostatistics, 5(2):189.
Author: Qingzhao Yu and Bin Li
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>
Diff between mma versions 3.1-0 dated 2016-08-08 and 4.0-0 dated 2016-12-14
DESCRIPTION | 18 MD5 | 26 NAMESPACE | 2 R/mma.r | 1808 +++++++++++++++++++++++++++--------------------- man/boot.med.Rd | 48 + man/data.org.Rd | 57 + man/med.Rd | 48 + man/mma-package.Rd | 10 man/mma.Rd | 68 + man/plot.mma.Rd | 11 man/print.med.Rd | 4 man/print.mma.Rd | 6 man/summary.med_iden.Rd | 2 man/summary.mma.Rd | 6 14 files changed, 1252 insertions(+), 862 deletions(-)
Title: Multi-Threaded Multidimensional Fixed Size Subset Sum Solver and
Extension to General-Purpose Knapsack Problem
Description: A novel algorithm for solving the subset sum problem with bounded error in multidimensional real domain and its application to the general-purpose knapsack problem.
Author: Charlie Wusuo Liu
Maintainer: Charlie Wusuo Liu <liuwusuo@gmail.com>
Diff between FLSSS versions 5.1 dated 2016-12-13 and 5.2 dated 2016-12-14
DESCRIPTION | 6 - MD5 | 10 +- R/FLSSS_20160323.r | 19 ++--- man/mFLSSSpar.Rd | 12 +-- man/mmFLknapsack.Rd | 15 ++-- src/FLSSSmulti_20160323.cpp | 161 +++++++------------------------------------- 6 files changed, 58 insertions(+), 165 deletions(-)
Title: Fitting the copCAR Regression Model for Discrete Areal Data
Description: Provides tools for fitting the copCAR (Hughes, 2015)
<DOI:10.1080/10618600.2014.948178> regression model for discrete
areal data. Three types of estimation are supported: continuous
extension, composite marginal likelihood, and distributional transform.
Author: Emily Goren <emily.goren@gmail.com> and John Hughes
<jphughesjr@gmail.com>
Maintainer: John Hughes <jphughesjr@gmail.com>
Diff between copCAR versions 1.0-2 dated 2016-07-04 and 1.0-3 dated 2016-12-14
DESCRIPTION | 17 +- MD5 | 22 +-- NAMESPACE | 5 R/copCAR.R | 4 R/zzz.R | 9 - man/adjacency.matrix.Rd | 15 -- man/copCAR.Rd | 303 +++++++++++++----------------------------------- man/rcopCAR.Rd | 40 +----- man/summary.copCAR.Rd | 16 -- man/vcov.copCAR.Rd | 12 - src/buildM.cpp | 4 src/buildM.h | 2 12 files changed, 152 insertions(+), 297 deletions(-)
Title: Bayesian Inference for Image Boundaries
Description: Provides tools for carrying out a Bayesian analysis of image boundaries. Functions are provided
for both binary (Bernoulli) and continuous (Gaussian) images. Examples, along with an interactive shiny function
illustrate how to perform simulations, analyze custom data, and plot estimates and credible intervals.
Author: Nicholas Syring, Meng Li
Maintainer: Nicholas Syring <nasyrin@gmail.com>
Diff between BayesBD versions 1.0 dated 2016-08-30 and 1.1 dated 2016-12-14
DESCRIPTION | 8 +- MD5 | 36 +++++----- NAMESPACE | 3 R/BayesBDshiny.R | 139 ++++++++++++++++++++++++++++++++------- R/RcppExports.R | 14 ++- R/plotBD.R | 24 +++++- data/pet_tumor1s_data.csv.gz |only data/pet_tumor2s_data.csv.gz |only man/BayesBD-package.Rd | 8 +- man/BayesBDbinary.Rd | 12 ++- man/BayesBDnormal.Rd | 16 +++- man/BayesBDshiny.Rd | 1 man/ellipse.Rd | 2 man/par2obs.Rd | 7 - man/parnormobs.Rd | 7 - man/pet_tumor1s_data.Rd |only man/pet_tumor2s_data.Rd |only man/plotBD.Rd | 9 -- man/triangle2.Rd | 4 - src/RcppExports.cpp | 15 ++-- src/rcpparma_hello_world.cpp | 153 ++++++++++++++++++++++++++++--------------- 21 files changed, 318 insertions(+), 140 deletions(-)
Title: Process activPAL Events Files
Description: Performs estimation of physical activity and sedentary behavior variables from activPAL (PAL Technologies, Glasgow, Scotland) events files. See <http://paltechnologies.com> for more information on the activPAL.
Author: Kate Lyden
Maintainer: Kate Lyden <activpalProcessing@gmail.com>
Diff between activpalProcessing versions 1.0.1 dated 2016-03-28 and 1.0.2 dated 2016-12-14
DESCRIPTION | 8 ++-- MD5 | 58 +++++++++++++++--------------- R/activpal.file.reader.R | 1 R/breaks.AP.R | 1 R/guideline.bouts.min.R | 1 R/guideline.bouts.num.R | 1 R/identifyDirectory.R | 1 R/identifyStudy.R | 1 R/identifySubjects.R | 1 R/identifyVisits.R | 1 R/lit.min.AP.R | 7 ++- R/mvpa.min.AP.R | 1 R/on.off.R | 1 R/process.AP.R | 41 ++++++++++++--------- R/prolonged.sed.bouts.min.R | 1 R/second.by.second.R | 6 --- R/sed.min.AP.R | 1 R/stand.min.AP.R | 1 R/step.min.AP.R | 1 R/wake.R | 1 data/PhysicalActivityIntervention_7_1.rda |binary data/PhysicalActivityIntervention_7_2.rda |binary data/PhysicalActivityIntervention_8_1.rda |binary data/PhysicalActivityIntervention_8_2.rda |binary data/events.data.rda |binary data/log.bed.rda |binary data/log.on.off.rda |binary data/log.subjects.rda |binary data/second.by.second.data.rda |binary man/lit.min.AP.Rd | 17 ++++---- 30 files changed, 71 insertions(+), 81 deletions(-)
More information about activpalProcessing at CRAN
Permanent link