Title: Retrieval, Analysis, and Anomaly Calculation of Daily Hydrologic
Time Series Data
Description: Imports U.S. Geological Survey (USGS) daily hydrologic data from USGS web services (see <https://waterservices.usgs.gov/> for more information), plots the data, addresses some common data problems, and calculates and plots anomalies.
Author: Karen R. Ryberg and Aldo V. Vecchia
Maintainer: Karen R. Ryberg <kryberg@usgs.gov>
Diff between waterData versions 1.0.4 dated 2014-11-18 and 1.0.5 dated 2017-01-04
DESCRIPTION | 20 +- LICENSE | 2 MD5 | 48 ++--- NAMESPACE | 17 +- NEWS | 9 - R/fillMiss.R | 2 R/importDVs.R | 373 ++++++++++++++++++++++---------------------- R/waterData-package.R | 6 build/vignette.rds |binary data/exampleWaterData.RData |binary inst/doc/vignette.R | 94 +++++------ inst/doc/vignette.Rnw | 112 ++++++------- inst/doc/vignette.pdf |binary man/cleanUp.Rd | 25 +- man/compAnom.Rd | 105 ++++++------ man/fillMiss.Rd | 55 +++--- man/importDVs.Rd | 121 +++++++------- man/plotAnoms.Rd | 7 man/plotParam.Rd | 21 +- man/siteInfo.Rd | 75 ++++---- man/summaryStats.Rd | 15 - man/tellMeSiteURL.Rd | 47 ++--- man/tellMeURL.Rd | 99 +++++------ man/waterData-package.Rd | 69 ++++---- vignettes/vignette.Rnw | 112 ++++++------- 25 files changed, 732 insertions(+), 702 deletions(-)
Title: Plotting Methods for 'simmer'
Description: A set of plotting methods for 'simmer' trajectories and simulations.
Author: Iñaki Ucar [aut, cph, cre],
Bart Smeets [aut, cph]
Maintainer: Iñaki Ucar <i.ucar86@gmail.com>
Diff between simmer.plot versions 0.1.4 dated 2016-12-30 and 0.1.5 dated 2017-01-04
DESCRIPTION | 8 +- LICENSE | 2 MD5 | 22 +++--- NEWS.md | 11 +++ R/plot.trajectory.R | 68 +++++++++++++-------- inst/doc/plot.simmer.html | 12 +-- inst/doc/plot.trajectory.R | 3 inst/doc/plot.trajectory.Rmd | 6 - inst/doc/plot.trajectory.html | 52 ---------------- man/plot.trajectory.Rd | 4 - tests/testthat/test-plot-trajectory.R | 108 +++++++++++++++++++++++----------- vignettes/plot.trajectory.Rmd | 6 - 12 files changed, 161 insertions(+), 141 deletions(-)
More information about Partiallyoverlapping at CRAN
Permanent link
Title: Basic Sensitivity Analysis of Epidemiological Results
Description: Basic sensitivity analysis of the observed relative risks adjusting
for unmeasured confounding and misclassification of the
exposure/outcome, or both. It follows the bias analysis methods and
examples from the book by Lash T.L, Fox M.P, and Fink A.K.
"Applying Quantitative Bias Analysis to Epidemiologic Data",
('Springer', 2009).
Author: Denis Haine [aut, cre]
Maintainer: Denis Haine <denis.haine@gmail.com>
Diff between episensr versions 0.7.2 dated 2016-02-02 and 0.8.0 dated 2017-01-04
DESCRIPTION | 16 - MD5 | 79 ++++--- NAMESPACE | 9 NEWS.md | 13 + R/boot.bias.R |only R/confounders.R | 276 +++++------------------- R/confounders.emm.R | 300 +++++---------------------- R/confounders.poly.R | 365 +++++++-------------------------- R/misclassification.R | 215 +++++++++---------- R/multidimBias.R | 70 +++--- R/plot.episensr.booted.R |only R/print.episensr.R |only R/print.episensr.booted.R |only R/probsens.R | 87 +------ R/probsens.conf.R | 57 +---- R/probsens.irr.R | 49 +--- R/probsens.irr.conf.R | 45 ---- R/probsens.sel.R | 54 +--- R/selection.R | 91 +++----- README.md | 62 +---- build |only inst |only man/boot.bias.Rd |only man/confounders.Rd | 35 --- man/confounders.emm.Rd | 55 +--- man/confounders.poly.Rd | 55 +--- man/misclassification.Rd | 36 +-- man/multidimBias.Rd | 10 man/plot.episensr.booted.Rd |only man/print.episensr.Rd |only man/print.episensr.booted.Rd |only man/probsens.Rd | 6 man/probsens.conf.Rd | 6 man/probsens.irr.Rd | 6 man/probsens.irr.conf.Rd | 6 man/probsens.sel.Rd | 6 man/selection.Rd | 14 - tests/testthat/test-confounders.R | 42 +-- tests/testthat/test-confounders.emm.R | 42 +-- tests/testthat/test-confounders.poly.R | 42 +-- tests/testthat/test-misclass.R | 24 +- tests/testthat/test-multidim.R | 4 tests/testthat/test-probsens.R | 63 +---- tests/testthat/test-selection.R | 12 - vignettes |only 45 files changed, 724 insertions(+), 1528 deletions(-)
Title: Perform Phylogenetic Path Analysis
Description: A comprehensive and easy to use R implementation of confirmatory
phylogenetic path analysis as described by Von Hardenberg and Gonzalez-Voyer
(2012) <doi:10.1111/j.1558-5646.2012.01790.x>.
Author: Wouter van der Bijl
Maintainer: Wouter van der Bijl <wouter.van.der.bijl@zoologi.su.se>
Diff between phylopath versions 0.2.1 dated 2016-11-10 and 0.2.2 dated 2017-01-04
DESCRIPTION | 10 ++-- MD5 | 25 +++++------ NAMESPACE | 1 NEWS.md | 22 +++++++++ R/DAG.R | 1 R/phylopath.R | 88 ++++++++++++++++++++++++++++----------- R/print_and_plot.R | 42 +++++++++++------- inst/doc/intro_to_phylopath.Rmd | 2 inst/doc/intro_to_phylopath.html | 20 ++++---- man/average.Rd | 4 - man/best.Rd | 4 - man/choice.Rd |only man/phylo_path.Rd | 17 +++++-- vignettes/intro_to_phylopath.Rmd | 2 14 files changed, 162 insertions(+), 76 deletions(-)
Title: Interface to 'Dygraphs' Interactive Time Series Charting Library
Description: An R interface to the 'dygraphs' JavaScript charting library
(a copy of which is included in the package). Provides rich facilities
for charting time-series data in R, including highly configurable
series- and axis-display and interactive features like zoom/pan and
series/point highlighting.
Author: Dan Vanderkam [aut, cph] (dygraphs library in htmlwidgets/lib,
http://dygraphs.com/),
JJ Allaire [aut, cre] (R interface),
RStudio [cph],
Jonathan Owen [aut, cph],
Daniel Gromer [aut, cph],
Petr Shevtsov [aut, cph],
Benoit Thieurmel [aut, cph],
jQuery Foundation [cph] (jQuery library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/htmlwidgets/lib/jquery/AUTHORS.txt)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between dygraphs versions 1.1.1.3 dated 2016-11-09 and 1.1.1.4 dated 2017-01-04
dygraphs-1.1.1.3/dygraphs/inst/examples/plugins |only dygraphs-1.1.1.4/dygraphs/DESCRIPTION | 10 ++- dygraphs-1.1.1.4/dygraphs/MD5 | 34 +++++++---- dygraphs-1.1.1.4/dygraphs/NAMESPACE | 5 + dygraphs-1.1.1.4/dygraphs/R/candlestick.R | 43 +++++++++++++-- dygraphs-1.1.1.4/dygraphs/R/dependency.R | 31 ++++++++++ dygraphs-1.1.1.4/dygraphs/R/plugins.R |only dygraphs-1.1.1.4/dygraphs/R/rebase.R |only dygraphs-1.1.1.4/dygraphs/inst/NEWS | 15 +++++ dygraphs-1.1.1.4/dygraphs/inst/htmlwidgets/dygraphs.js | 35 +++++++----- dygraphs-1.1.1.4/dygraphs/inst/htmlwidgets/dygraphs.yaml | 4 + dygraphs-1.1.1.4/dygraphs/inst/htmlwidgets/lib/fquarter |only dygraphs-1.1.1.4/dygraphs/inst/plugins/compress.js |only dygraphs-1.1.1.4/dygraphs/inst/plugins/crosshair.js |only dygraphs-1.1.1.4/dygraphs/inst/plugins/rebase.js |only dygraphs-1.1.1.4/dygraphs/inst/plugins/ribbon.js |only dygraphs-1.1.1.4/dygraphs/inst/plugins/unzoom.js |only dygraphs-1.1.1.4/dygraphs/man/dyCandlestick.Rd | 5 + dygraphs-1.1.1.4/dygraphs/man/dyCrosshair.Rd |only dygraphs-1.1.1.4/dygraphs/man/dyDataHandler.Rd |only dygraphs-1.1.1.4/dygraphs/man/dyPlugin.Rd | 4 - dygraphs-1.1.1.4/dygraphs/man/dyRebase.Rd |only dygraphs-1.1.1.4/dygraphs/man/dyRibbon.Rd |only dygraphs-1.1.1.4/dygraphs/man/dyUnzoom.Rd |only 24 files changed, 147 insertions(+), 39 deletions(-)
Title: Data Set for the 'benchmarkme' Package
Description: Crowd sourced benchmarks from running the 'benchmarkme' package.
Author: Colin Gillespie [aut, cre]
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between benchmarkmeData versions 0.3.0 dated 2016-06-20 and 0.4.0 dated 2017-01-04
benchmarkmeData-0.3.0/benchmarkmeData/inst/shinyExamples |only benchmarkmeData-0.3.0/benchmarkmeData/man/shine.Rd |only benchmarkmeData-0.4.0/benchmarkmeData/DESCRIPTION | 9 - benchmarkmeData-0.4.0/benchmarkmeData/MD5 | 45 +++---- benchmarkmeData-0.4.0/benchmarkmeData/NAMESPACE | 2 benchmarkmeData-0.4.0/benchmarkmeData/NEWS.md | 7 + benchmarkmeData-0.4.0/benchmarkmeData/R/benchmarkmeData-package.R | 11 - benchmarkmeData-0.4.0/benchmarkmeData/R/datatable.R | 18 ++ benchmarkmeData-0.4.0/benchmarkmeData/R/get_benchmarks.R |only benchmarkmeData-0.4.0/benchmarkmeData/R/make_data_set.R | 4 benchmarkmeData-0.4.0/benchmarkmeData/R/move_files.R | 2 benchmarkmeData-0.4.0/benchmarkmeData/R/plot_past.R | 36 ++--- benchmarkmeData-0.4.0/benchmarkmeData/R/select_results.R | 18 +- benchmarkmeData-0.4.0/benchmarkmeData/R/shine.R | 62 +++++----- benchmarkmeData-0.4.0/benchmarkmeData/data/past_results.RData |binary benchmarkmeData-0.4.0/benchmarkmeData/inst/shinyapps_io |only benchmarkmeData-0.4.0/benchmarkmeData/man/benchmarkmeData-package.Rd | 11 - benchmarkmeData-0.4.0/benchmarkmeData/man/get_datatable_past.Rd | 10 - benchmarkmeData-0.4.0/benchmarkmeData/man/move_files.Rd | 2 benchmarkmeData-0.4.0/benchmarkmeData/man/plot_past.Rd | 11 - benchmarkmeData-0.4.0/benchmarkmeData/man/select_results.Rd | 24 ++- benchmarkmeData-0.4.0/benchmarkmeData/tests/testthat/test-datatable_past.R | 8 - benchmarkmeData-0.4.0/benchmarkmeData/tests/testthat/test-plot_past.R | 8 - 23 files changed, 156 insertions(+), 132 deletions(-)
More information about benchmarkmeData at CRAN
Permanent link
Title: Tools to Simulate Phenotype(s) with Epistatic Interaction
Description: Provides functions to simulate single or multiple, independent or correlated phenotype(s) with additive, dominance effects and their interactions. Also includes functions to generate phenotype(s) with specific heritability. Flexible and user-friendly options for simulation.
Author: Beibei Jiang <beibei_jiang@psych.mpg.de> and Benno Pütz
Maintainer: Beibei Jiang <beibei_jiang@psych.mpg.de>
Diff between SimPhe versions 0.1.0 dated 2017-01-03 and 0.1.1 dated 2017-01-04
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- build/vignette.rds |binary inst/doc/SimPhe.Rmd | 13 +++++++------ inst/doc/SimPhe.html | 8 ++++---- vignettes/SimPhe.Rmd | 13 +++++++------ 6 files changed, 26 insertions(+), 24 deletions(-)
Title: Statistical Disclosure Control Methods for Anonymization of
Microdata and Risk Estimation
Description: Data from statistical agencies and other institutions are mostly
confidential. This package can be used for the generation of anonymized
(micro)data, i.e. for the creation of public- and scientific-use files. In
addition, various risk estimation methods are included. Note that the package
includes a graphical user interface that allows to use various methods of this
package.
Author: Matthias Templ, Alexander Kowarik, Bernhard Meindl
Maintainer: Matthias Templ <matthias.templ@gmail.com>
Diff between sdcMicro versions 4.6.1 dated 2016-08-19 and 5.0.0 dated 2017-01-04
sdcMicro-4.6.1/sdcMicro/man/groupVars.Rd |only sdcMicro-4.6.1/sdcMicro/man/renameVars.Rd |only sdcMicro-4.6.1/sdcMicro/src/Makevars |only sdcMicro-4.6.1/sdcMicro/src/Makevars.win |only sdcMicro-4.6.1/sdcMicro/src/freqCalc.h |only sdcMicro-4.6.1/sdcMicro/tests/testthat/test_addNoise.R |only sdcMicro-5.0.0/sdcMicro/DESCRIPTION | 42 sdcMicro-5.0.0/sdcMicro/MD5 | 253 +- sdcMicro-5.0.0/sdcMicro/NAMESPACE | 382 +++ sdcMicro-5.0.0/sdcMicro/NEWS | 19 sdcMicro-5.0.0/sdcMicro/R/0classes.r | 614 +++++- sdcMicro-5.0.0/sdcMicro/R/GUIfunctions.R | 577 ++++- sdcMicro-5.0.0/sdcMicro/R/LLmodGlobalRisk.R | 94 sdcMicro-5.0.0/sdcMicro/R/LocalRecProg.R | 78 sdcMicro-5.0.0/sdcMicro/R/RcppExports.R | 2 sdcMicro-5.0.0/sdcMicro/R/addGhostVars.R |only sdcMicro-5.0.0/sdcMicro/R/addNoise.r | 193 + sdcMicro-5.0.0/sdcMicro/R/aux_functions.r | 279 ++ sdcMicro-5.0.0/sdcMicro/R/createNewID.R |only sdcMicro-5.0.0/sdcMicro/R/dRisk.R | 38 sdcMicro-5.0.0/sdcMicro/R/dRiskRMD.R | 27 sdcMicro-5.0.0/sdcMicro/R/dUtility.R | 28 sdcMicro-5.0.0/sdcMicro/R/dataGen.r | 28 sdcMicro-5.0.0/sdcMicro/R/dataSets.R | 14 sdcMicro-5.0.0/sdcMicro/R/freqCalc.r | 553 +---- sdcMicro-5.0.0/sdcMicro/R/globalRecode.R | 136 - sdcMicro-5.0.0/sdcMicro/R/groupAndRename.R |only sdcMicro-5.0.0/sdcMicro/R/indivRisk.R | 20 sdcMicro-5.0.0/sdcMicro/R/localSupp.R | 161 + sdcMicro-5.0.0/sdcMicro/R/localSuppression.R | 277 +- sdcMicro-5.0.0/sdcMicro/R/maG.R | 96 sdcMicro-5.0.0/sdcMicro/R/mafast.R | 67 sdcMicro-5.0.0/sdcMicro/R/measure_risk.R | 173 - sdcMicro-5.0.0/sdcMicro/R/methods.r | 204 +- sdcMicro-5.0.0/sdcMicro/R/microaggregation.R | 1016 ++++------ sdcMicro-5.0.0/sdcMicro/R/modRisk.R | 352 +-- sdcMicro-5.0.0/sdcMicro/R/plotMicro.R | 16 sdcMicro-5.0.0/sdcMicro/R/pram.R | 627 +++--- sdcMicro-5.0.0/sdcMicro/R/printFunctions.R | 386 ++- sdcMicro-5.0.0/sdcMicro/R/rankSwap.R | 55 sdcMicro-5.0.0/sdcMicro/R/report.R | 267 +- sdcMicro-5.0.0/sdcMicro/R/sdcApp.R |only sdcMicro-5.0.0/sdcMicro/R/sdcMicro-package.R | 19 sdcMicro-5.0.0/sdcMicro/R/show_sdcMicroObj.R | 13 sdcMicro-5.0.0/sdcMicro/R/shuffle.R | 132 - sdcMicro-5.0.0/sdcMicro/R/suda2.R | 38 sdcMicro-5.0.0/sdcMicro/R/topBotCoding.R | 112 - sdcMicro-5.0.0/sdcMicro/R/zzz.R | 4 sdcMicro-5.0.0/sdcMicro/build/vignette.rds |binary sdcMicro-5.0.0/sdcMicro/data/CASCrefmicrodata.rda |binary sdcMicro-5.0.0/sdcMicro/data/EIA.rda |binary sdcMicro-5.0.0/sdcMicro/data/Tarragona.rda |binary sdcMicro-5.0.0/sdcMicro/data/casc1.rda |binary sdcMicro-5.0.0/sdcMicro/data/francdat.rda |binary sdcMicro-5.0.0/sdcMicro/data/free1.rda |binary sdcMicro-5.0.0/sdcMicro/data/microData.rda |binary sdcMicro-5.0.0/sdcMicro/data/testdata.RData |binary sdcMicro-5.0.0/sdcMicro/data/testdata2.RData |binary sdcMicro-5.0.0/sdcMicro/inst/doc/sdcApp.Rmd |only sdcMicro-5.0.0/sdcMicro/inst/doc/sdcApp.html |only sdcMicro-5.0.0/sdcMicro/inst/doc/sdc_guidelines.pdf |binary sdcMicro-5.0.0/sdcMicro/inst/doc/sdc_guidelines.rnw | 5 sdcMicro-5.0.0/sdcMicro/inst/shiny |only sdcMicro-5.0.0/sdcMicro/inst/templates/report-template-simple.rmd |only sdcMicro-5.0.0/sdcMicro/inst/templates/report-template.rmd | 45 sdcMicro-5.0.0/sdcMicro/man/LLmodGlobalRisk.Rd | 9 sdcMicro-5.0.0/sdcMicro/man/LocalRecProg.Rd | 10 sdcMicro-5.0.0/sdcMicro/man/addGhostVars.Rd |only sdcMicro-5.0.0/sdcMicro/man/addNoise.Rd | 26 sdcMicro-5.0.0/sdcMicro/man/calcRisks.Rd | 9 sdcMicro-5.0.0/sdcMicro/man/createNewID.Rd |only sdcMicro-5.0.0/sdcMicro/man/dRisk.Rd | 22 sdcMicro-5.0.0/sdcMicro/man/dRiskRMD.Rd | 14 sdcMicro-5.0.0/sdcMicro/man/dUtility.Rd | 12 sdcMicro-5.0.0/sdcMicro/man/dataGen.Rd | 14 sdcMicro-5.0.0/sdcMicro/man/extractManipData.Rd | 34 sdcMicro-5.0.0/sdcMicro/man/freq.Rd |only sdcMicro-5.0.0/sdcMicro/man/freqCalc.Rd | 27 sdcMicro-5.0.0/sdcMicro/man/get.sdcMicroObj.Rd |only sdcMicro-5.0.0/sdcMicro/man/globalRecode.Rd | 61 sdcMicro-5.0.0/sdcMicro/man/groupAndRename.Rd |only sdcMicro-5.0.0/sdcMicro/man/importProblem.Rd |only sdcMicro-5.0.0/sdcMicro/man/indivRisk.Rd | 16 sdcMicro-5.0.0/sdcMicro/man/localSupp.Rd | 38 sdcMicro-5.0.0/sdcMicro/man/localSuppression.Rd | 39 sdcMicro-5.0.0/sdcMicro/man/mafast.Rd | 15 sdcMicro-5.0.0/sdcMicro/man/measure_risk.Rd | 59 sdcMicro-5.0.0/sdcMicro/man/mergeHouseholdData.Rd |only sdcMicro-5.0.0/sdcMicro/man/microData.Rd | 1 sdcMicro-5.0.0/sdcMicro/man/microaggrGower.Rd | 6 sdcMicro-5.0.0/sdcMicro/man/microaggregation.Rd | 76 sdcMicro-5.0.0/sdcMicro/man/modRisk.Rd | 6 sdcMicro-5.0.0/sdcMicro/man/nextSdcObj.Rd |only sdcMicro-5.0.0/sdcMicro/man/plot.localSuppression.Rd | 4 sdcMicro-5.0.0/sdcMicro/man/plotMicro.Rd | 3 sdcMicro-5.0.0/sdcMicro/man/pram.Rd | 125 - sdcMicro-5.0.0/sdcMicro/man/print.freqCalc.Rd | 2 sdcMicro-5.0.0/sdcMicro/man/print.indivRisk.Rd | 8 sdcMicro-5.0.0/sdcMicro/man/print.localSuppression.Rd | 6 sdcMicro-5.0.0/sdcMicro/man/print.micro.Rd | 5 sdcMicro-5.0.0/sdcMicro/man/print.pram.Rd | 2 sdcMicro-5.0.0/sdcMicro/man/print.sdcMicroObj.Rd | 39 sdcMicro-5.0.0/sdcMicro/man/rankSwap.Rd | 14 sdcMicro-5.0.0/sdcMicro/man/readMicrodata.Rd |only sdcMicro-5.0.0/sdcMicro/man/removeDirectID.Rd | 8 sdcMicro-5.0.0/sdcMicro/man/report.Rd | 21 sdcMicro-5.0.0/sdcMicro/man/sdcApp.Rd |only sdcMicro-5.0.0/sdcMicro/man/sdcMicro-package.Rd | 19 sdcMicro-5.0.0/sdcMicro/man/sdcMicroObj-class.Rd | 75 sdcMicro-5.0.0/sdcMicro/man/selectHouseholdData.Rd |only sdcMicro-5.0.0/sdcMicro/man/set.sdcMicroObj.Rd |only sdcMicro-5.0.0/sdcMicro/man/show-sdcMicroObj-method.Rd |only sdcMicro-5.0.0/sdcMicro/man/shuffle.Rd | 14 sdcMicro-5.0.0/sdcMicro/man/subsetMicrodata.Rd |only sdcMicro-5.0.0/sdcMicro/man/suda2.Rd | 16 sdcMicro-5.0.0/sdcMicro/man/summary.freqCalc.Rd | 2 sdcMicro-5.0.0/sdcMicro/man/summary.micro.Rd | 2 sdcMicro-5.0.0/sdcMicro/man/summary.pram.Rd | 4 sdcMicro-5.0.0/sdcMicro/man/testdata.Rd | 13 sdcMicro-5.0.0/sdcMicro/man/topBotCoding.Rd | 28 sdcMicro-5.0.0/sdcMicro/man/varToFactor.Rd | 11 sdcMicro-5.0.0/sdcMicro/man/writeSafeFile.Rd |only sdcMicro-5.0.0/sdcMicro/src/0Main.cpp | 1 sdcMicro-5.0.0/sdcMicro/src/RcppExports.cpp | 10 sdcMicro-5.0.0/sdcMicro/tests/reporting_test.R | 34 sdcMicro-5.0.0/sdcMicro/tests/testthat/test_freqCalc.R | 224 +- sdcMicro-5.0.0/sdcMicro/vignettes/da1.sty | 28 sdcMicro-5.0.0/sdcMicro/vignettes/sdcApp.Rmd |only sdcMicro-5.0.0/sdcMicro/vignettes/sdc_guidelines.rnw | 5 129 files changed, 4907 insertions(+), 3752 deletions(-)
Title: General Frailty Models: Shared, Joint and Nested Frailty Models
with Prediction
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package:
1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied.
2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope).
3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects.
4) Joint frailty models in the context of the joint modelling for recurrent events with terminal event for clustered data or not. A joint frailty model for two semi-competing risks and clustered data is also proposed.
5) Joint general frailty models in the context of the joint modelling for recurrent events with terminal event data with two independent frailty terms.
6) Joint Nested frailty models in the context of the joint modelling for recurrent events with terminal event, for hierarchically clustered data (with two levels of clustering) by including two iid gamma random effects.
7) Multivariate joint frailty models for two types of recurrent events and a terminal event.
8) Joint models for longitudinal data and a terminal event.
9) Trivariate joint models for longitudinal data, recurrent events and a terminal event.
Prediction values are available (for a terminal event or for a new recurrent event). Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have the gamma or normal distribution. Now, you can also consider time-varying covariates effects in Cox, shared and joint frailty models (1-5). The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey
Mauguen, Agnieszka Krol, Amadou Diakite, Alexandre Laurent and Myriam Lopez
Maintainer: Virginie Rondeau <Virginie.Rondeau@isped.u-bordeaux2.fr>
Diff between frailtypack versions 2.10.3 dated 2016-10-19 and 2.10.4 dated 2017-01-04
frailtypack-2.10.3/frailtypack/src/atestWald.f90 |only frailtypack-2.10.4/frailtypack/DESCRIPTION | 8 frailtypack-2.10.4/frailtypack/MD5 | 60 frailtypack-2.10.4/frailtypack/NEWS | 59 frailtypack-2.10.4/frailtypack/R/additivePenal.R | 22 frailtypack-2.10.4/frailtypack/R/frailtyPenal.R | 64 frailtypack-2.10.4/frailtypack/R/longiPenal.R | 142 frailtypack-2.10.4/frailtypack/R/multivPenal.R | 104 frailtypack-2.10.4/frailtypack/R/plot.predFrailty.R | 34 frailtypack-2.10.4/frailtypack/R/plot.predJoint.R | 2 frailtypack-2.10.4/frailtypack/R/prediction.R | 2554 ++++++----- frailtypack-2.10.4/frailtypack/R/print.jointPenal.R | 14 frailtypack-2.10.4/frailtypack/R/survival.R | 2 frailtypack-2.10.4/frailtypack/R/waldtest.R | 44 frailtypack-2.10.4/frailtypack/inst/doc/Package_summary.Rmd | 47 frailtypack-2.10.4/frailtypack/inst/doc/Package_summary.html | 54 frailtypack-2.10.4/frailtypack/man/frailtyPenal.Rd | 7 frailtypack-2.10.4/frailtypack/man/frailtypack-package.Rd | 3 frailtypack-2.10.4/frailtypack/man/prediction.Rd | 114 frailtypack-2.10.4/frailtypack/src/Aparameters.f90 | 13 frailtypack-2.10.4/frailtypack/src/Makevars | 2 frailtypack-2.10.4/frailtypack/src/afuncpasres.f90 | 64 frailtypack-2.10.4/frailtypack/src/aresidusMartingale.f90 | 106 frailtypack-2.10.4/frailtypack/src/distance.f90 | 18 frailtypack-2.10.4/frailtypack/src/funcpajsplines_fam.f90 | 22 frailtypack-2.10.4/frailtypack/src/joint.f90 | 180 frailtypack-2.10.4/frailtypack/src/prediction.f90 | 4 frailtypack-2.10.4/frailtypack/src/prediction_Recurr_Sha.f90 |only frailtypack-2.10.4/frailtypack/src/prediction_biv.f90 | 1638 +++---- frailtypack-2.10.4/frailtypack/src/prediction_sha_logn.f90 | 46 frailtypack-2.10.4/frailtypack/src/prediction_tri.f90 | 1804 +++---- frailtypack-2.10.4/frailtypack/vignettes/Package_summary.Rmd | 47 32 files changed, 3841 insertions(+), 3437 deletions(-)
Title: Approximate Bayesian Computation via Random Forests
Description: Performs Approximate Bayesian Computation (ABC) model choice and parameter inference via random forests.
Author: Jean-Michel Marin [aut, cre],
Louis Raynal [aut],
Pierre Pudlo [aut],
Christian P. Robert [ctb],
Arnaud Estoup [ctb]
Maintainer: Jean-Michel Marin <jean-michel.marin@umontpellier.fr>
Diff between abcrf versions 1.4 dated 2016-11-30 and 1.5 dated 2017-01-04
DESCRIPTION | 10 ++++---- MD5 | 8 +++--- R/predict.abcrf.R | 13 +++++++++-- R/readRefTable.R | 2 - man/readRefTable.Rd | 60 ++++++++++++++++++++++++++-------------------------- 5 files changed, 51 insertions(+), 42 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-06 1.4.0
2016-08-16 1.3.0
2015-05-06 1.2.0
2013-11-08 1.1.1
2013-11-06 1.1.0
2013-06-12 1.0.2
2013-04-23 1.0.1
2013-04-07 1.0
2012-09-05 0.9
2010-12-03 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-09-07 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-12 2.0-2
2013-05-24 2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-08-31 1.2.3
2016-01-17 1.2.0
2015-12-13 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-10-23 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-07-10 1.1.1
2016-02-04 1.1
Title: Accessing Environmental Data from ERD's ERDDAP Server
Description: Contains three functions that access
environmental data from ERD's ERDDAP service <http://coastwatch.pfeg.noaa.gov/erddap>. The xtracto() function extracts
data along a trajectory for a given "radius" around the point. The
xtracto_3D() function extracts data in a box. The xtractogon() function
extracts data in a polygon. There are also two helper functions to obtain
information about available data.
Author: Roy Mendelssohn [aut, cre],
Cindy Bessey [ctb],
Dave Foley [ctb]
Maintainer: Roy Mendelssohn <roy.mendelssohn@noaa.gov>
Diff between xtractomatic versions 3.1.1 dated 2016-10-05 and 3.2.0 dated 2017-01-04
DESCRIPTION | 6 MD5 | 49 +- NEWS.md |only R/buildURL.R | 2 R/getETOPO.R | 8 R/getETOPOtrack.R | 32 - R/getFIleCoords.R | 67 +++ R/getInfo.R | 4 R/getMaxTime.R | 8 R/searchData.R | 8 R/xtracto.R | 48 +- R/xtracto_3D.R | 16 R/xtractogon.R | 7 README.md | 11 build/vignette.rds |binary inst/doc/Usingxtractomatic.R | 678 +++++++++++++++++++++++++------------- inst/doc/Usingxtractomatic.Rmd | 698 ++++++++++++++++++++++++++-------------- inst/doc/Usingxtractomatic.html | 496 ++++++++++++++-------------- man/buildURL.Rd | 2 man/getETOPO.Rd | 2 man/getETOPOtrack.Rd | 2 man/getMaxTime.Rd | 2 man/getfileCoords.Rd | 2 man/xtracto.Rd | 16 man/xtracto_3D.Rd | 12 vignettes/Usingxtractomatic.Rmd | 698 ++++++++++++++++++++++++++-------------- 26 files changed, 1820 insertions(+), 1054 deletions(-)
Title: A More Scalable Alternative to Venn and Euler Diagrams for
Visualizing Intersecting Sets
Description: Creates visualizations of intersecting sets using a novel matrix
design, along with visualizations of several common set, element and attribute
related tasks.
Author: Jake Conway [cre],
Nils Gehlenborg [aut]
Maintainer: Jake Conway <jake_conway@hms.harvard.edu>
Diff between UpSetR versions 1.3.1 dated 2016-11-10 and 1.3.2 dated 2017-01-04
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 8 ++++++++ R/MainBar.R | 11 ++++++++++- R/SizeBar.R | 8 +++++++- R/upset.R | 4 ++-- 6 files changed, 36 insertions(+), 13 deletions(-)
Title: Access to Facebook API via R
Description: Provides an interface to the Facebook API.
Author: Pablo Barbera <pbarbera@usc.edu>, Michael Piccirilli
<mrp2181@columbia.edu>, Andrew Geisler
Maintainer: Pablo Barbera <pbarbera@usc.edu>
Diff between Rfacebook versions 0.6.6 dated 2016-07-12 and 0.6.11 dated 2017-01-04
ChangeLog | 10 ++++++++++ DESCRIPTION | 8 ++++---- MD5 | 24 +++++++++++++----------- NAMESPACE | 1 + R/getCommentReplies.R |only R/getGroup.R | 21 +++++++++++++++------ R/getInsights.R | 8 +++++++- R/getPage.R | 11 ++++++----- R/getPost.R | 2 +- R/getReactions.R | 18 ++++++++++++------ R/utils.R | 32 ++++++++++++++++++++++++++++++++ man/getCommentReplies.Rd |only man/getGroup.Rd | 7 ++++++- man/getPage.Rd | 5 ++++- 14 files changed, 111 insertions(+), 36 deletions(-)
Title: Penn World Table (Version 8.x)
Description: The Penn World Table 8.x provides information on relative levels of
income, output, inputs, and productivity for 167 countries
between 1950 and 2011.
Author: Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between pwt8 versions 8.1-0 dated 2015-07-07 and 8.1-1 dated 2017-01-04
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS | 12 +++++++++--- data/pwt8.0.rda |binary data/pwt8.1.rda |binary inst/CITATION | 12 +++++++----- man/pwt8.0.Rd | 1 - 7 files changed, 26 insertions(+), 19 deletions(-)
Title: Text Mining of PubMed Abstracts
Description: Text mining of PubMed Abstracts (text and XML) from <http://www.ncbi.nlm.nih.gov/pubmed>.
Author: Jyoti Rani, S.Ramachandran, Ab Rauf Shah
Maintainer: S. Ramachandran <ramu@igib.in>
Diff between pubmed.mineR versions 1.0.5 dated 2016-02-18 and 1.0.6 dated 2017-01-04
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- R/find_intro_conc_html.R | 4 ++-- R/get_NMids.R | 2 +- R/input_for_find_intro_conc_html.R | 6 +++--- R/local_uniprotfun.R | 2 +- R/pubtator_function.R | 2 +- R/uniprotfun.R | 2 +- data/GeneToEntrez.rda |binary data/HGNC2UniprotID.rda |binary data/HGNCdata.rda |binary data/common_words_new.rda |binary 12 files changed, 25 insertions(+), 25 deletions(-)
Title: Modeling Earthquake Data Using ETAS Model
Description: Fits the space-time Epidemic Type Aftershock Sequence
(ETAS) model to earthquake catalogs using a stochastic declustering
approach. The ETAS model is a spatio-temporal marked point process
model and a special case of the Hawkes process. The package is based
on a Fortran program by Jiancang Zhuang
(available at <http://bemlar.ism.ac.jp/zhuang/software.html>),
which is modified and translated into C++ and C such that it
can be called from R.
Author: Abdollah Jalilian [aut, cre], Jiancang Zhuang [ctb]
Maintainer: Abdollah Jalilian <jalilian@razi.ac.ir>
Diff between ETAS versions 0.3 dated 2016-12-27 and 0.4 dated 2017-01-04
DESCRIPTION | 20 ++++----- MD5 | 30 +++++++------ NAMESPACE | 4 - R/RcppExports.R | 8 +-- R/catalog.R | 2 R/etas.R | 96 +++++-------------------------------------- R/rates.R | 112 +++++++++++++++++++++++++++++---------------------- R/resid.etas.R |only man/ETAS-internal.Rd | 9 +--- man/catalog.Rd | 5 +- man/etas.Rd | 18 +++++--- man/etas.object.Rd | 25 ++++------- man/italy.quakes.Rd | 2 man/rates.Rd | 28 ++++++++---- man/resid.etas.Rd |only src/RcppExports.cpp | 26 +++++++---- src/fitMP.cpp | 88 +++++++++++++++++++++++++++++++++++----- 17 files changed, 253 insertions(+), 220 deletions(-)
Title: Hierarchical Bayesian Model for a Hazard Function
Description: Fits a piecewise exponential hazard to survival data using a
Hierarchical Bayesian model with an Intrinsic Conditional Autoregressive
formulation for the spatial dependency in the hazard rates for each piece.
This function uses Metropolis- Hastings-Green MCMC to allow the number of split
points to vary. This function outputs graphics that display the histogram of
the number of split points and the trace plots of the hierarchical parameters.
The function outputs a list that contains the posterior samples for the number
of split points, the location of the split points, and the log hazard rates
corresponding to these splits. Additionally, this outputs the posterior samples
of the two hierarchical parameters, Mu and Sigma^2.
Author: Andrew Chapple [aut, cre]
Maintainer: Andrew Chapple <Andrew.G.Chapple@rice.edu>
Diff between BayesPiecewiseICAR versions 0.2.0 dated 2016-08-20 and 0.2.1 dated 2017-01-04
DESCRIPTION | 9 +++++---- MD5 | 2 +- 2 files changed, 6 insertions(+), 5 deletions(-)
More information about BayesPiecewiseICAR at CRAN
Permanent link
Title: Bivariate Angular Mixture Models
Description: Fit (using Bayesian methods) and simulate mixtures of univariate and bivariate angular distributions.
Author: Saptarshi Chakraborty,
Samuel W.K. Wong
Maintainer: Saptarshi Chakraborty <c7rishi@ufl.edu>
Diff between BAMBI versions 1.0.0 dated 2017-01-01 and 1.0.1 dated 2017-01-04
DESCRIPTION | 8 ++++---- MD5 | 37 +++++++++++++++++++------------------ R/RcppExports.R | 4 ---- R/all_vm_fns.R | 3 ++- R/all_vmsin_fns.R | 5 +++-- man/fit_vmcosmix.Rd | 5 +++-- man/fit_vmmix.Rd | 8 +++++--- man/fit_vmsinmix.Rd | 5 +++-- man/fit_wnorm2mix.Rd | 5 +++-- man/fit_wnormmix.Rd | 5 +++-- src/Makevars | 2 +- src/Makevars.win | 2 +- src/RcppExports.cpp | 9 --------- src/bessel.h | 2 +- src/thread_num.h |only src/univm_llik_grad.cpp | 26 ++++++++++++++++---------- src/uniwnorm_llik_grad.cpp | 44 ++++++++++++++++++++++---------------------- src/vmcos_llik_grad.cpp | 44 +++++++++++++++++--------------------------- src/vmsin_llik_grad.cpp | 26 ++++++++++++++++---------- src/wnorm2_llik_grad.cpp | 26 ++++++++++++++++---------- 20 files changed, 135 insertions(+), 131 deletions(-)