Title: R Tools for Inferring New Immunoglobulin Alleles from Rep-Seq
Data
Description: Infers the V genotype of an individual from immunoglobulin (Ig)
repertoire-sequencing (Rep-Seq) data, including detection of any novel
alleles. This information is then used to correct existing V allele calls
from among the sample sequences.
Author: Daniel Gadala-Maria [aut, cre],
Jason Vander Heiden [ctb],
Steven Kleinstein [aut, cph]
Maintainer: Daniel Gadala-Maria <daniel.gadala-maria@yale.edu>
Diff between tigger versions 0.2.5 dated 2016-06-13 and 0.2.7 dated 2016-07-24
DESCRIPTION | 14 +++++++------- MD5 | 24 ++++++++++++------------ NEWS.md | 23 ++++++++++++++++++++++- R/functions.R | 23 ++++++++++++++--------- R/tigger.R | 4 ++-- README.md | 12 ------------ build/vignette.rds |binary inst/doc/Tigger-Vignette.R | 2 +- inst/doc/Tigger-Vignette.Rmd | 7 ++++--- inst/doc/Tigger-Vignette.pdf |binary man/findNovelAlleles.Rd | 12 ++++++------ man/findUnmutatedCalls.Rd | 4 +++- vignettes/Tigger-Vignette.Rmd | 7 ++++--- 13 files changed, 75 insertions(+), 57 deletions(-)
Title: Multivariate Dependence with Copulas
Description: Classes (S4) of commonly used elliptical, Archimedean, extreme
value and some more copula families. Methods for density, distribution,
random number generation, bivariate dependence measures, perspective and
contour plots. Fitting copula models including variance estimates.
Independence and serial (univariate and multivariate) independence tests,
and other copula related tests. Empirical copula and multivariate CDF.
Goodness-of-fit tests for copulas based on multipliers, the parametric
bootstrap with several transformation options.
Merged former package 'nacopula' for nested Archimedean copulas: Efficient
sampling algorithms, various estimators, goodness-of-fit tests and related
tools and special functions.
Author: Marius Hofert <marius.hofert@uwaterloo.ca>,
Ivan Kojadinovic <ivan.kojadinovic@univ-pau.fr>,
Martin Maechler <maechler@stat.math.ethz.ch>, and
Jun Yan <jun.yan@uconn.edu>
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between copula versions 0.999-14 dated 2015-10-26 and 0.999-15 dated 2016-07-24
copula-0.999-14/copula/R/asymExplicitCopula.R |only copula-0.999-14/copula/R/derCdfPdf.R |only copula-0.999-14/copula/R/gofTests.R |only copula-0.999-14/copula/R/trafos.R |only copula-0.999-14/copula/data/rdj.tab.gz |only copula-0.999-14/copula/man/gofTrafos.Rd |only copula-0.999-14/copula/man/p2P.Rd |only copula-0.999-14/copula/man/splom2.Rd |only copula-0.999-15/copula/DESCRIPTION | 45 copula-0.999-15/copula/MD5 | 446 +++--- copula-0.999-15/copula/NAMESPACE | 144 +- copula-0.999-15/copula/R/AllClass.R | 88 - copula-0.999-15/copula/R/An.R | 2 copula-0.999-15/copula/R/Auxiliaries.R | 16 copula-0.999-15/copula/R/Classes.R | 174 +- copula-0.999-15/copula/R/Copula.R | 49 copula-0.999-15/copula/R/K.R | 214 +-- copula-0.999-15/copula/R/acR.R | 4 copula-0.999-15/copula/R/amhCopula.R | 6 copula-0.999-15/copula/R/asymCopula.R | 608 +++++++- copula-0.999-15/copula/R/aux-acopula.R | 70 - copula-0.999-15/copula/R/cCopula.R |only copula-0.999-15/copula/R/claytonCopula.R | 5 copula-0.999-15/copula/R/dC-dc.R |only copula-0.999-15/copula/R/ellipCopula.R | 21 copula-0.999-15/copula/R/empPsi.R | 15 copula-0.999-15/copula/R/empcop.R | 62 copula-0.999-15/copula/R/estimation.R | 92 - copula-0.999-15/copula/R/evCopula.R | 4 copula-0.999-15/copula/R/evTests.R | 544 ++++--- copula-0.999-15/copula/R/exchTests.R | 182 +- copula-0.999-15/copula/R/fitCopula.R | 1104 ++++++++-------- copula-0.999-15/copula/R/fitLambda.R |only copula-0.999-15/copula/R/fitMvdc.R | 34 copula-0.999-15/copula/R/fixedPar.R |only copula-0.999-15/copula/R/frankCopula.R | 4 copula-0.999-15/copula/R/galambosCopula.R | 11 copula-0.999-15/copula/R/ggraph-tools.R | 110 - copula-0.999-15/copula/R/gofCopula.R |only copula-0.999-15/copula/R/gofEVTests.R | 46 copula-0.999-15/copula/R/gofTrafos.R | 288 ---- copula-0.999-15/copula/R/graphics.R | 905 ++++++++++--- copula-0.999-15/copula/R/gumbelCopula.R | 20 copula-0.999-15/copula/R/huslerReissCopula.R | 11 copula-0.999-15/copula/R/indepCopula.R | 2 copula-0.999-15/copula/R/indepTests.R | 12 copula-0.999-15/copula/R/joeCopula.R | 2 copula-0.999-15/copula/R/matrix_tools.R |only copula-0.999-15/copula/R/mvdc.R | 6 copula-0.999-15/copula/R/nacopula.R | 46 copula-0.999-15/copula/R/normalCopula.R | 32 copula-0.999-15/copula/R/opower.R |only copula-0.999-15/copula/R/pairsRosenblatt.R | 2 copula-0.999-15/copula/R/plackettCopula.R | 6 copula-0.999-15/copula/R/prob.R |only copula-0.999-15/copula/R/rotCopula.R |only copula-0.999-15/copula/R/rstable1.R | 8 copula-0.999-15/copula/R/schlatherCopula.R | 19 copula-0.999-15/copula/R/special-func.R | 4 copula-0.999-15/copula/R/stable.R | 2 copula-0.999-15/copula/R/tCopula.R | 135 + copula-0.999-15/copula/R/tawnCopula.R | 6 copula-0.999-15/copula/R/tevCopula.R | 64 copula-0.999-15/copula/R/timing.R | 2 copula-0.999-15/copula/R/wrapper.R | 56 copula-0.999-15/copula/R/xvCopula.R |only copula-0.999-15/copula/TODO | 450 +++--- copula-0.999-15/copula/build/partial.rdb |binary copula-0.999-15/copula/build/vignette.rds |binary copula-0.999-15/copula/data/gasoil.rda |only copula-0.999-15/copula/data/rdj.rda |only copula-0.999-15/copula/demo/00Index | 1 copula-0.999-15/copula/demo/dDiag-plots-part-2.R |only copula-0.999-15/copula/demo/dDiag-plots.R | 198 -- copula-0.999-15/copula/demo/estimation_via_HAC.R | 19 copula-0.999-15/copula/demo/fitting-tests.R | 12 copula-0.999-15/copula/demo/gofCopula.R | 42 copula-0.999-15/copula/demo/gof_graph.R | 9 copula-0.999-15/copula/inst/NEWS.Rd | 69 - copula-0.999-15/copula/inst/Rsource/cops.R | 13 copula-0.999-15/copula/inst/Rsource/estim-gof-fn.R | 6 copula-0.999-15/copula/inst/Rsource/tstFit-fn.R | 6 copula-0.999-15/copula/inst/Rsource/utils.R | 15 copula-0.999-15/copula/inst/doc/AC_Liouville.Rmd | 11 copula-0.999-15/copula/inst/doc/AC_Liouville.html | 321 +++- copula-0.999-15/copula/inst/doc/AR_Clayton.Rmd | 5 copula-0.999-15/copula/inst/doc/AR_Clayton.html | 344 +++- copula-0.999-15/copula/inst/doc/Frank-Rmpfr.pdf |binary copula-0.999-15/copula/inst/doc/GIG.Rmd | 21 copula-0.999-15/copula/inst/doc/GIG.html | 491 ++++--- copula-0.999-15/copula/inst/doc/NALC.Rmd | 13 copula-0.999-15/copula/inst/doc/NALC.html | 428 ++++-- copula-0.999-15/copula/inst/doc/copula_GARCH.Rmd | 144 +- copula-0.999-15/copula/inst/doc/copula_GARCH.html | 470 ++++-- copula-0.999-15/copula/inst/doc/dNAC.Rmd | 5 copula-0.999-15/copula/inst/doc/dNAC.html | 440 ++++-- copula-0.999-15/copula/inst/doc/logL_visualization.Rmd | 62 copula-0.999-15/copula/inst/doc/logL_visualization.html | 747 +++++++--- copula-0.999-15/copula/inst/doc/nacopula-pkg.pdf |binary copula-0.999-15/copula/inst/doc/qrng.Rmd | 732 ++++------ copula-0.999-15/copula/inst/doc/qrng.html | 1073 ++++++++------- copula-0.999-15/copula/inst/doc/rhoAMH-dilog.pdf |binary copula-0.999-15/copula/inst/doc/tail_compatibility.Rmd | 23 copula-0.999-15/copula/inst/doc/tail_compatibility.html | 464 ++++-- copula-0.999-15/copula/inst/doc/wild_animals.Rmd | 15 copula-0.999-15/copula/inst/doc/wild_animals.html | 457 ++++-- copula-0.999-15/copula/inst/docs/mathnb/README | 4 copula-0.999-15/copula/inst/rData/README.org |only copula-0.999-15/copula/man/An.Rd | 7 copula-0.999-15/copula/man/Bernoulli.Rd | 2 copula-0.999-15/copula/man/Copula.Rd | 23 copula-0.999-15/copula/man/K.Rd | 141 +- copula-0.999-15/copula/man/Mvdc.Rd | 5 copula-0.999-15/copula/man/RSpobs.Rd | 2 copula-0.999-15/copula/man/SMI.12.Rd | 1 copula-0.999-15/copula/man/Sibuya.Rd | 2 copula-0.999-15/copula/man/Stirling.Rd | 2 copula-0.999-15/copula/man/absdpsiMC.Rd | 2 copula-0.999-15/copula/man/acR.Rd | 2 copula-0.999-15/copula/man/acopula-class.Rd | 2 copula-0.999-15/copula/man/allComp.Rd | 2 copula-0.999-15/copula/man/archmCopula-class.Rd | 1 copula-0.999-15/copula/man/archmCopula.Rd | 23 copula-0.999-15/copula/man/assocMeasures.Rd | 48 copula-0.999-15/copula/man/asymCopula-class.Rd |only copula-0.999-15/copula/man/asymCopula.Rd |only copula-0.999-15/copula/man/beta.Blomqvist.Rd | 2 copula-0.999-15/copula/man/cCopula.Rd | 171 +- copula-0.999-15/copula/man/cloud2-methods.Rd |only copula-0.999-15/copula/man/coeffG.Rd | 4 copula-0.999-15/copula/man/contour-methods.Rd | 60 copula-0.999-15/copula/man/contourplot2-methods.Rd |only copula-0.999-15/copula/man/copFamilies.Rd | 2 copula-0.999-15/copula/man/copula-class.Rd | 29 copula-0.999-15/copula/man/copula-internal.Rd | 6 copula-0.999-15/copula/man/copula-package.Rd | 16 copula-0.999-15/copula/man/dDiag.Rd | 2 copula-0.999-15/copula/man/dnacopula.Rd | 2 copula-0.999-15/copula/man/ellipCopula-class.Rd | 52 copula-0.999-15/copula/man/ellipCopula.Rd | 34 copula-0.999-15/copula/man/emde.Rd | 2 copula-0.999-15/copula/man/emle.Rd | 2 copula-0.999-15/copula/man/empcop.Rd | 132 + copula-0.999-15/copula/man/enacopula.Rd | 4 copula-0.999-15/copula/man/estim-misc.Rd | 14 copula-0.999-15/copula/man/evCopula-class.Rd | 1 copula-0.999-15/copula/man/evCopula.Rd | 1 copula-0.999-15/copula/man/evTestA.Rd | 1 copula-0.999-15/copula/man/evTestC.Rd | 1 copula-0.999-15/copula/man/evTestK.Rd | 6 copula-0.999-15/copula/man/exchEVTest.Rd | 23 copula-0.999-15/copula/man/exchTest.Rd | 23 copula-0.999-15/copula/man/fgmCopula-class.Rd | 1 copula-0.999-15/copula/man/fgmCopula.Rd | 1 copula-0.999-15/copula/man/fitCopula-class.Rd | 1 copula-0.999-15/copula/man/fitCopula.Rd | 411 +++-- copula-0.999-15/copula/man/fitLambda.Rd |only copula-0.999-15/copula/man/fitMvdc.Rd | 22 copula-0.999-15/copula/man/fixedPar.Rd |only copula-0.999-15/copula/man/gasoil.Rd |only copula-0.999-15/copula/man/generator-methods.Rd | 5 copula-0.999-15/copula/man/getAcop.Rd | 19 copula-0.999-15/copula/man/ggraph-tools.Rd | 6 copula-0.999-15/copula/man/gnacopula.Rd | 13 copula-0.999-15/copula/man/gofCopula.Rd | 205 +- copula-0.999-15/copula/man/gofEVCopula.Rd | 64 copula-0.999-15/copula/man/gofOtherTstat.Rd | 2 copula-0.999-15/copula/man/gofTstat.Rd | 8 copula-0.999-15/copula/man/htrafo.Rd |only copula-0.999-15/copula/man/indepCopula-class.Rd | 1 copula-0.999-15/copula/man/indepCopula.Rd | 1 copula-0.999-15/copula/man/indepTest.Rd | 39 copula-0.999-15/copula/man/initOpt.Rd | 6 copula-0.999-15/copula/man/interval-class.Rd | 2 copula-0.999-15/copula/man/interval.Rd | 2 copula-0.999-15/copula/man/log1mexp.Rd | 4 copula-0.999-15/copula/man/loss.Rd | 1 copula-0.999-15/copula/man/math-fun.Rd | 2 copula-0.999-15/copula/man/matrix_tools.Rd |only copula-0.999-15/copula/man/multIndepTest.Rd | 9 copula-0.999-15/copula/man/multSerialIndepTest.Rd | 61 copula-0.999-15/copula/man/mvdc-class.Rd | 1 copula-0.999-15/copula/man/nacPairthetas.Rd | 2 copula-0.999-15/copula/man/nacTiming.Rd | 10 copula-0.999-15/copula/man/nacopula-class.Rd | 2 copula-0.999-15/copula/man/nesdepth.Rd | 1 copula-0.999-15/copula/man/onacopula.Rd | 2 copula-0.999-15/copula/man/opower.Rd | 2 copula-0.999-15/copula/man/pairs2.Rd |only copula-0.999-15/copula/man/pairsCond.Rd | 3 copula-0.999-15/copula/man/pairsRosenblatt.Rd | 8 copula-0.999-15/copula/man/persp-methods.Rd | 75 - copula-0.999-15/copula/man/plackettCopula.Rd | 6 copula-0.999-15/copula/man/plot-methods.Rd |only copula-0.999-15/copula/man/pnacopula.Rd | 2 copula-0.999-15/copula/man/pobs.Rd | 8 copula-0.999-15/copula/man/polylog.Rd | 2 copula-0.999-15/copula/man/polynEval.Rd | 3 copula-0.999-15/copula/man/printNacopula.Rd | 2 copula-0.999-15/copula/man/prob.Rd | 6 copula-0.999-15/copula/man/qqplot2.Rd | 6 copula-0.999-15/copula/man/rF01FrankJoe.Rd | 2 copula-0.999-15/copula/man/rFFrankJoe.Rd | 2 copula-0.999-15/copula/man/rdj.Rd | 30 copula-0.999-15/copula/man/retstable.Rd | 2 copula-0.999-15/copula/man/rlog.Rd | 2 copula-0.999-15/copula/man/rnacModel.Rd | 2 copula-0.999-15/copula/man/rnacopula.Rd | 2 copula-0.999-15/copula/man/rnchild.Rd | 2 copula-0.999-15/copula/man/rotCopula.Rd |only copula-0.999-15/copula/man/rstable1.Rd | 12 copula-0.999-15/copula/man/safeUroot.Rd | 3 copula-0.999-15/copula/man/serialIndepTest.Rd | 61 copula-0.999-15/copula/man/setTheta.Rd | 2 copula-0.999-15/copula/man/show-methods.Rd | 2 copula-0.999-15/copula/man/splom2-methods.Rd |only copula-0.999-15/copula/man/tauAMH.Rd | 5 copula-0.999-15/copula/man/uranium.Rd | 1 copula-0.999-15/copula/man/wireframe2-methods.Rd |only copula-0.999-15/copula/man/xvCopula.Rd |only copula-0.999-15/copula/src/gof.c | 25 copula-0.999-15/copula/src/gof.h | 4 copula-0.999-15/copula/src/init.c | 5 copula-0.999-15/copula/tests/Stirling-etc.R | 9 copula-0.999-15/copula/tests/copula-play.R | 7 copula-0.999-15/copula/tests/dC-dc-ex.R |only copula-0.999-15/copula/tests/fitting-ex.R | 182 ++ copula-0.999-15/copula/tests/fixedPar-ex.R |only copula-0.999-15/copula/tests/ggraph-tst.R | 1 copula-0.999-15/copula/tests/moments.R | 6 copula-0.999-15/copula/tests/rstable-ex.R | 18 copula-0.999-15/copula/tests/tail-pcopula.R | 14 copula-0.999-15/copula/tests/tail-pcopula.Rout.save | 32 copula-0.999-15/copula/vignettes/AC_Liouville.Rmd | 11 copula-0.999-15/copula/vignettes/AR_Clayton.Rmd | 5 copula-0.999-15/copula/vignettes/GIG.Rmd | 21 copula-0.999-15/copula/vignettes/NALC.Rmd | 13 copula-0.999-15/copula/vignettes/copula_GARCH.Rmd | 144 +- copula-0.999-15/copula/vignettes/dNAC.Rmd | 5 copula-0.999-15/copula/vignettes/logL_visualization.Rmd | 62 copula-0.999-15/copula/vignettes/qrng.Rmd | 732 ++++------ copula-0.999-15/copula/vignettes/style.css |only copula-0.999-15/copula/vignettes/tail_compatibility.Rmd | 23 copula-0.999-15/copula/vignettes/wild_animals.Rmd | 15 244 files changed, 9388 insertions(+), 6796 deletions(-)
Title: Client for the HuffPost Pollster API
Description: Client for the HuffPost Pollster API, which provides
access to U.S. opinion polls since 2004.
Author: Jeffrey B. Arnold [aut, cre],
Thomas J. Leeper [aut],
Drew Linzer [aut]
Maintainer: Jeffrey B. Arnold <jeffrey.arnold@gmail.com>
Diff between pollstR versions 1.3.0 dated 2016-04-21 and 1.4.0 dated 2016-07-24
pollstR-1.3.0/pollstR/inst/testthat |only pollstR-1.3.0/pollstR/inst/vign-src |only pollstR-1.3.0/pollstR/man/pollstr_chart.Rd |only pollstR-1.3.0/pollstR/man/pollstr_charts.Rd |only pollstR-1.3.0/pollstR/man/pollstr_polls.Rd |only pollstR-1.3.0/pollstR/vignettes/assets |only pollstR-1.4.0/pollstR/DESCRIPTION | 13 pollstR-1.4.0/pollstR/MD5 | 71 ++-- pollstR-1.4.0/pollstR/NAMESPACE | 20 - pollstR-1.4.0/pollstR/NEWS | 18 - pollstR-1.4.0/pollstR/R/chart.R | 99 +++--- pollstR-1.4.0/pollstR/R/chart_tbl.R |only pollstR-1.4.0/pollstR/R/charts.R | 129 +++---- pollstR-1.4.0/pollstR/R/house-effects.R |only pollstR-1.4.0/pollstR/R/polls.R | 210 ++++-------- pollstR-1.4.0/pollstR/R/pollstr-package.R | 113 ++++++ pollstR-1.4.0/pollstR/build/vignette.rds |binary pollstR-1.4.0/pollstR/inst/CITATION | 6 pollstR-1.4.0/pollstR/inst/doc/introduction.R |only pollstR-1.4.0/pollstR/inst/doc/introduction.Rmd | 309 +------------------ pollstR-1.4.0/pollstR/inst/doc/introduction.html | 324 +++++++------------- pollstR-1.4.0/pollstR/inst/examples |only pollstR-1.4.0/pollstR/man/pollster_chart.Rd |only pollstR-1.4.0/pollstR/man/pollster_chart_data.Rd |only pollstR-1.4.0/pollstR/man/pollster_charts.Rd |only pollstR-1.4.0/pollstR/man/pollster_house_effects.Rd |only pollstR-1.4.0/pollstR/man/pollster_polls.Rd |only pollstR-1.4.0/pollstR/tests |only pollstR-1.4.0/pollstR/vignettes/children |only pollstR-1.4.0/pollstR/vignettes/figures |only pollstR-1.4.0/pollstR/vignettes/introduction.Rmd | 309 +------------------ pollstR-1.4.0/pollstR/vignettes/introduction.md |only 32 files changed, 530 insertions(+), 1091 deletions(-)
Title: Cubic Spline Fitting with Knot Selection
Description: Cubic spline fitting along with knot selection, includes support for additional variables.
Author: Eric Golinko
Maintainer: Eric Golinko <egolinko@gmail.com>
Diff between Kpart versions 1.1 dated 2012-12-19 and 1.2.0 dated 2016-07-24
Kpart-1.1/Kpart/R/Kpart.example.R |only Kpart-1.1/Kpart/R/Kpart.knots.R |only Kpart-1.1/Kpart/R/Kpart.plot.R |only Kpart-1.1/Kpart/R/lm.Kpart.R |only Kpart-1.1/Kpart/inst |only Kpart-1.1/Kpart/man/Kpart.example.Rd |only Kpart-1.1/Kpart/man/Kpart.knots.Rd |only Kpart-1.1/Kpart/man/Kpart.plot.Rd |only Kpart-1.1/Kpart/man/lm.Kpart.Rd |only Kpart-1.2.0/Kpart/DESCRIPTION | 14 ++++++++------ Kpart-1.2.0/Kpart/MD5 | 17 +++++------------ Kpart-1.2.0/Kpart/NAMESPACE | 7 +++---- Kpart-1.2.0/Kpart/R/part.R |only Kpart-1.2.0/Kpart/man/Kpart-package.Rd | 14 +++++++++++--- Kpart-1.2.0/Kpart/man/part.Rd |only 15 files changed, 27 insertions(+), 25 deletions(-)
Title: A Simplified Interface for Running Commands on Parallel
Processes
Description: Provides a function that wraps
mcparallel() and mccollect() from 'parallel' with temporary variables and a
task handler. Wrapped in this way the results of an mcparallel() call
can be returned to the R session when the fork is complete
without explicitly issuing a specific mccollect() to retrieve the value.
Outside of top-level tasks, multiple mcparallel() jobs can be retrieved with
a single call to mcparallelDoCheck().
Author: Russell S. Pierce
Maintainer: Russell S. Pierce <russell.s.pierce@gmail.com>
Diff between mcparallelDo versions 1.0.0 dated 2015-12-09 and 1.1.0 dated 2016-07-24
ChangeLog | 8 DESCRIPTION | 14 - MD5 | 15 - NAMESPACE | 7 NEWS.md |only R/mcparallelDo.R | 396 ++++++++++++++++++++++---------------------- README.md | 37 +++- man/mcparallelDo-package.Rd | 2 man/mcparallelDo.Rd | 11 + 9 files changed, 270 insertions(+), 220 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of use. Integer,
floating point and complex numbers are supported, as well as a subset of
trigonometric and statistics functions. Various matrix decompositions are
provided through optional integration with LAPACK and ATLAS libraries.
The 'RcppArmadillo' package includes the header files from the templated
'Armadillo' library. Thus users do not need to install 'Armadillo' itself in
order to use 'RcppArmadillo'. 'Armadillo' is licensed under the MPL 2.0, while
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the
GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel, Romain Francois and Doug Bates
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.7.100.3.1 dated 2016-06-03 and 0.7.200.2.0 dated 2016-07-24
ChangeLog | 32 DESCRIPTION | 12 MD5 | 120 - build/vignette.rds |binary configure | 30 configure.ac | 12 inst/NEWS.Rd | 24 inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-unitTests.pdf |binary inst/include/RcppArmadilloExtensions/fixprob.h | 15 inst/include/RcppArmadilloExtensions/sample.h | 91 inst/include/armadillo_bits/BaseCube_bones.hpp | 8 inst/include/armadillo_bits/BaseCube_meat.hpp | 72 inst/include/armadillo_bits/Base_bones.hpp | 5 inst/include/armadillo_bits/Base_meat.hpp | 54 inst/include/armadillo_bits/Mat_bones.hpp | 4 inst/include/armadillo_bits/Mat_meat.hpp | 30 inst/include/armadillo_bits/Proxy.hpp | 1673 +++++++++--------- inst/include/armadillo_bits/SpBase_bones.hpp | 5 inst/include/armadillo_bits/SpBase_meat.hpp | 54 inst/include/armadillo_bits/SpMat_meat.hpp | 6 inst/include/armadillo_bits/arma_rng_cxx98.hpp | 8 inst/include/armadillo_bits/arma_version.hpp | 6 inst/include/armadillo_bits/auxlib_meat.hpp | 16 inst/include/armadillo_bits/compiler_setup.hpp | 1 inst/include/armadillo_bits/debug.hpp | 6 inst/include/armadillo_bits/diskio_meat.hpp | 16 inst/include/armadillo_bits/fn_eigs_sym.hpp | 2 inst/include/armadillo_bits/fn_expmat.hpp | 28 inst/include/armadillo_bits/fn_logmat.hpp | 20 inst/include/armadillo_bits/fn_misc.hpp | 258 ++ inst/include/armadillo_bits/fn_sqrtmat.hpp | 18 inst/include/armadillo_bits/fn_svds.hpp | 8 inst/include/armadillo_bits/glue_conv_meat.hpp | 10 inst/include/armadillo_bits/gmm_diag_meat.hpp | 6 inst/include/armadillo_bits/newarp_SortEigenvalue.hpp | 1 inst/include/armadillo_bits/op_all_bones.hpp | 12 inst/include/armadillo_bits/op_all_meat.hpp | 53 inst/include/armadillo_bits/op_any_bones.hpp | 12 inst/include/armadillo_bits/op_any_meat.hpp | 47 inst/include/armadillo_bits/op_expmat_bones.hpp | 5 inst/include/armadillo_bits/op_expmat_meat.hpp | 44 inst/include/armadillo_bits/op_logmat_meat.hpp | 16 inst/include/armadillo_bits/op_max_bones.hpp | 12 inst/include/armadillo_bits/op_max_meat.hpp | 279 ++- inst/include/armadillo_bits/op_mean_bones.hpp | 3 inst/include/armadillo_bits/op_mean_meat.hpp | 12 inst/include/armadillo_bits/op_min_bones.hpp | 16 inst/include/armadillo_bits/op_min_meat.hpp | 277 ++ inst/include/armadillo_bits/op_shuffle_meat.hpp | 6 inst/include/armadillo_bits/op_sort_bones.hpp | 22 inst/include/armadillo_bits/op_sort_index_bones.hpp | 74 inst/include/armadillo_bits/op_sort_index_meat.hpp | 103 - inst/include/armadillo_bits/op_sqrtmat_meat.hpp | 38 inst/include/armadillo_bits/op_vectorise_bones.hpp | 20 inst/include/armadillo_bits/op_vectorise_meat.hpp | 100 + inst/include/armadillo_bits/subview_bones.hpp | 9 inst/include/armadillo_bits/subview_cube_bones.hpp | 3 inst/include/armadillo_bits/subview_cube_meat.hpp | 64 inst/include/armadillo_bits/subview_meat.hpp | 136 + inst/include/armadillo_bits/unwrap.hpp | 26 61 files changed, 2798 insertions(+), 1242 deletions(-)
More information about GameTheoryAllocation at CRAN
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Title: Maximum Likelihood Estimation and Likelihood Ratio Test
Functions for Separable Variance-Covariance Structures
Description: It combines maximum likelihood estimation of the parameters
of matrix and 3rd-order tensor normal distributions with unstructured
factor variance-covariance matrices, two procedures, and unbiased
modified likelihood ratio testing of simple and double separability
for variance-covariance structures, two procedures.
Author: Ameur Manceur [aut],
Timothy Schwinghamer [aut, cre],
Pierre Dutilleul [aut, cph]
Maintainer: Timothy Schwinghamer <schwinghamer@hotmail.com>
Diff between sEparaTe versions 0.1.1 dated 2016-06-15 and 0.1.2 dated 2016-07-24
DESCRIPTION | 14 +++++++------- MD5 | 6 +++--- R/lrt3d_svc.R | 8 ++++---- R/mle3d_svc.R | 4 ++-- 4 files changed, 16 insertions(+), 16 deletions(-)
Title: Scalable Bayesian Rule Lists Model
Description: An implementation of Scalable Bayesian Rule Lists Algorithm.
Author: Hongyu Yang [aut, cre],
Morris Chen [ctb],
Cynthia Rudin [aut, ctb],
Margo Seltzer [aut, ctb]
Maintainer: Hongyu Yang <hongyuy@mit.edu>
Diff between sbrl versions 1.0 dated 2016-06-15 and 1.1 dated 2016-07-24
DESCRIPTION | 9 - MD5 | 18 +-- configure | 305 ++++++++++++++++++++++++++++++++++++++++++++++++---- configure.ac | 197 +++++++++++++++++++++++++++++++-- src/Makevars.in | 8 - src/mytime.h | 3 src/rcpp_module.cpp | 3 src/rule.h | 12 +- src/rulelib.c | 128 ++++++++++----------- src/train.c | 150 ++++++++++++------------- 10 files changed, 638 insertions(+), 195 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 mcapply, on Windows.
Author: Kevin Kuang
Maintainer: Kevin kuang <kvn.kuang@mail.utoronto.ca>
Diff between pbmcapply versions 1.0.0 dated 2016-07-06 and 1.1.0 dated 2016-07-24
DESCRIPTION | 14 ++++-- LICENSE | 4 - MD5 | 14 +++--- NAMESPACE | 7 +-- R/pbmclapply.R | 100 ++++++++++++++++++++++------------------------- R/pbmcmapply.R | 114 +++++++++++++++++++++++------------------------------- man/pbmclapply.Rd | 93 ++++++++++++++++++++------------------------ man/pbmcmapply.Rd | 91 ++++++++++++++++++++----------------------- 8 files changed, 208 insertions(+), 229 deletions(-)
Title: Reproducible Data Retrieval from the ICPSR Archive
Description: Reproducible, programmatic retrieval of datasets from the
Inter-university Consortium for Political and Social Research archive.
Author: Frederick Solt [aut, cre],
Kellen Gracey [aut],
Eric Persson [ctb]
Maintainer: Frederick Solt <frederick-solt@uiowa.edu>
Diff between icpsrdata versions 0.1.0 dated 2016-05-20 and 0.1.1 dated 2016-07-24
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ NEWS.md | 3 +++ R/icpsrdownload.R | 2 +- README.md | 6 +++++- build/vignette.rds |binary inst/doc/icpsrdata-vignette.html | 4 ++-- 7 files changed, 22 insertions(+), 15 deletions(-)
Title: Advanced Tables for Markdown/HTML
Description: Tables with state-of-the-art layout elements such as row spanners,
column spanners, table spanners, zebra striping, and more. While allowing
advanced layout, the underlying css-structure is simple in order to maximize
compatibility with word processors such as 'MS Word' or 'LibreOffice'. The package
also contains a few text formatting functions that help outputting text
compatible with HTML/'LaTeX'.
Author: Max Gordon <max@gforge.se>
Maintainer: Max Gordon <max@gforge.se>
Diff between htmlTable versions 1.5 dated 2016-01-18 and 1.6 dated 2016-07-24
htmlTable-1.5/htmlTable/tests/visual_tests/word_test.html |only htmlTable-1.6/htmlTable/DESCRIPTION | 11 htmlTable-1.6/htmlTable/MD5 | 139 htmlTable-1.6/htmlTable/NAMESPACE | 69 htmlTable-1.6/htmlTable/NEWS | 143 htmlTable-1.6/htmlTable/R/data-SCB.R | 28 htmlTable-1.6/htmlTable/R/deprecated.R | 78 htmlTable-1.6/htmlTable/R/htmlTable.R | 2152 - htmlTable-1.6/htmlTable/R/htmlTable_helpers.R | 1958 htmlTable-1.6/htmlTable/R/htmlTable_render.R | 512 htmlTable-1.6/htmlTable/R/interactiveTable.R | 474 htmlTable-1.6/htmlTable/R/txtFrmt.R | 575 htmlTable-1.6/htmlTable/README.md | 2358 - htmlTable-1.6/htmlTable/build/vignette.rds |binary htmlTable-1.6/htmlTable/inst/doc/general.R | 342 htmlTable-1.6/htmlTable/inst/doc/general.Rmd | 634 htmlTable-1.6/htmlTable/inst/doc/general.html | 8358 ++-- htmlTable-1.6/htmlTable/inst/doc/tables.R | 446 htmlTable-1.6/htmlTable/inst/doc/tables.Rmd | 819 htmlTable-1.6/htmlTable/inst/doc/tables.html |20435 +++++----- htmlTable-1.6/htmlTable/inst/examples/data-SCB_example.R | 60 htmlTable-1.6/htmlTable/inst/examples/htmlTable_example.R | 86 htmlTable-1.6/htmlTable/inst/examples/interactiveTable_example.R | 38 htmlTable-1.6/htmlTable/inst/html_components/button.html | 4 htmlTable-1.6/htmlTable/inst/javascript/button.js | 48 htmlTable-1.6/htmlTable/inst/javascript/toggler.js | 80 htmlTable-1.6/htmlTable/man/SCB.Rd | 104 htmlTable-1.6/htmlTable/man/htmlTable.Rd | 746 htmlTable-1.6/htmlTable/man/interactiveTable.Rd | 152 htmlTable-1.6/htmlTable/man/outputInt.Rd | 40 htmlTable-1.6/htmlTable/man/prAddCells.Rd | 104 htmlTable-1.6/htmlTable/man/prAddSemicolon2StrEnd.Rd | 56 htmlTable-1.6/htmlTable/man/prAttr4RgroupAdd.Rd | 46 htmlTable-1.6/htmlTable/man/prConvertDfFactors.Rd | 38 htmlTable-1.6/htmlTable/man/prGetAlign.Rd | 46 htmlTable-1.6/htmlTable/man/prGetCgroupHeader.Rd | 148 htmlTable-1.6/htmlTable/man/prGetRgroupLine.Rd | 108 htmlTable-1.6/htmlTable/man/prGetRowlabelPos.Rd | 76 htmlTable-1.6/htmlTable/man/prGetScriptString.Rd | 40 htmlTable-1.6/htmlTable/man/prGetStyle.Rd | 68 htmlTable-1.6/htmlTable/man/prGetThead.Rd | 188 htmlTable-1.6/htmlTable/man/prMergeClr.Rd | 46 htmlTable-1.6/htmlTable/man/prPrepareAlign.Rd | 86 htmlTable-1.6/htmlTable/man/prPrepareCgroup.Rd | 90 htmlTable-1.6/htmlTable/man/prPrepareColors.Rd | 50 htmlTable-1.6/htmlTable/man/prPrepareCss.Rd | 68 htmlTable-1.6/htmlTable/man/prSkipRownames.Rd | 40 htmlTable-1.6/htmlTable/man/prTblNo.Rd | 64 htmlTable-1.6/htmlTable/man/pvalueFormatter.Rd | 38 htmlTable-1.6/htmlTable/man/splitLines4Table.Rd | 38 htmlTable-1.6/htmlTable/man/tblNoLast.Rd | 52 htmlTable-1.6/htmlTable/man/tblNoNext.Rd | 52 htmlTable-1.6/htmlTable/man/txtInt.Rd | 72 htmlTable-1.6/htmlTable/man/txtMergeLines.Rd | 78 htmlTable-1.6/htmlTable/man/txtPval.Rd | 98 htmlTable-1.6/htmlTable/man/txtRound.Rd | 103 htmlTable-1.6/htmlTable/tests/testInteractive.R | 54 htmlTable-1.6/htmlTable/tests/testthat.R | 6 htmlTable-1.6/htmlTable/tests/testthat/test-htmlTable.R | 612 htmlTable-1.6/htmlTable/tests/testthat/test-htmlTable_cgroup.R | 228 htmlTable-1.6/htmlTable/tests/testthat/test-htmlTable_rgroup_tspanner.R | 462 htmlTable-1.6/htmlTable/tests/testthat/test-htmlTable_total.R | 118 htmlTable-1.6/htmlTable/tests/testthat/test-interactiveTable.R | 632 htmlTable-1.6/htmlTable/tests/testthat/test-txtFrmt.R | 265 htmlTable-1.6/htmlTable/tests/testthat/test-txtMergeLines.R | 48 htmlTable-1.6/htmlTable/tests/visual_tests/htmlTable_vtests.R | 230 htmlTable-1.6/htmlTable/tests/visual_tests/pandoc_test.Rmd | 58 htmlTable-1.6/htmlTable/tests/visual_tests/word_test.Rmd | 84 htmlTable-1.6/htmlTable/vignettes/custom.css | 324 htmlTable-1.6/htmlTable/vignettes/general.Rmd | 634 htmlTable-1.6/htmlTable/vignettes/tables.Rmd | 819 71 files changed, 23736 insertions(+), 23620 deletions(-)
Title: Serializable Representations
Description: String and binary representations of objects for several formats /
mime types.
Author: Philipp Angerer [aut, cre],
Thomas Kluyver [aut],
Jan Schulz [aut],
abielr [ctb],
Denilson Figueiredo de Sa [ctb],
Jim Hester [ctb],
karldw [ctb]
Maintainer: Philipp Angerer <phil.angerer@gmail.com>
Diff between repr versions 0.7 dated 2016-05-13 and 0.9 dated 2016-07-24
DESCRIPTION | 14 - MD5 | 32 +- NAMESPACE | 11 + R/generics.r | 3 R/options.r | 2 R/repr_function.r | 12 - R/repr_help_files_with_topic.r | 15 - R/repr_list.r | 72 +++--- R/repr_matrix_df.r | 203 +++++++++--------- R/repr_recordedplot.r | 47 ++-- R/repr_vector.r | 84 +++---- R/utils.r | 106 ++++----- tests/testthat/test_array_df.r | 38 ++- tests/testthat/test_array_manipulation.r | 335 ++++++++++++++----------------- tests/testthat/test_escaping.r | 122 +++++++---- tests/testthat/test_list.r |only tests/testthat/test_repr_packageIQR.r | 8 tests/testthat/test_vector.r |only 18 files changed, 591 insertions(+), 513 deletions(-)
Title: Compute the Rectangular Statistical Cartogram
Description: Provides an interface and a C++ implementation of the RecMap MP2
construction heuristic (see 'citation("recmap")' for details). This algorithm
draws maps according to a given statistical value (e.g. election results,
population or epidemiological data). The basic idea of the RecMap algorithm is
that each map region (e.g. different countries) is represented by a
rectangle. The area of each rectangle represents the statistical value given
as input (maintain zero cartographic error). Documentation about 'RecMap' is
provided by a vignette included in this package and a 'RecMap gallery' site at
<http://cartodraw.science/recmap/gallery>.
Author: Christian Panse
Maintainer: Christian Panse <Christian.Panse@gmail.com>
Diff between recmap versions 0.5.3 dated 2016-07-13 and 0.5.4 dated 2016-07-24
DESCRIPTION | 6 +- MD5 | 15 +++--- NAMESPACE | 4 + R/recmap.R | 119 +++++++++++++++++++++++++++++++++++++++++++++++--- build/partial.rdb |only inst/NEWS.Rd | 8 ++- inst/doc/recmap.html | 8 +-- man/recmap.Rd | 13 +++-- man/recmapGRASP.Rd |only man/summary.recmap.Rd |only 10 files changed, 147 insertions(+), 26 deletions(-)
Title: A Tool for Structural Topic Model Visualizations
Description: Generates an interactive visualization of topic correlations/
hierarchy in a Structural Topic Model (STM) of Roberts, Stewart, and Tingley.
The package performs a hierarchical clustering of topics which are then exported
to a JSON object and visualized using D3.
Author: Antonio Coppola, Margaret Roberts, Brandon Stewart, Dustin Tingley
Maintainer: Antonio Coppola <acoppola@alumni.harvard.edu>
Diff between stmCorrViz versions 1.2 dated 2015-07-12 and 1.3 dated 2016-07-24
DESCRIPTION | 19 ++++++++++++------- MD5 | 18 +++++++++++------- NAMESPACE | 11 +++++------ R/findThreshold.R |only R/stmCorrViz.R | 22 ++++++++++++++++++++-- R/stmJSON.R | 4 +++- data |only man/findThreshold.Rd |only man/immigration_perceptions.Rd |only man/stmCorrViz-package.Rd | 8 ++++---- man/stmCorrViz.Rd | 38 +++++++++++--------------------------- man/stmJSON.Rd | 4 ++-- 12 files changed, 68 insertions(+), 56 deletions(-)