Title: Integrative Bayesian Analysis of Transcriptomic and CGH data
Diff between iBATCGH versions 1.0 dated 2014-09-02 and 1.1 dated 2014-09-13
Description: Bayesian integrative models of gene expression and comparative genomic hybridization data. The package provides inference on copy number variations and their association with gene expression
Author: Alberto Cassese
Maintainer: Alberto Cassese
DESCRIPTION | 6 +++---
MD5 | 16 ++++++++--------
inst/include/MHXIProbit.h | 2 +-
inst/include/MHXImixture.h | 2 +-
src/MixtureMain.cpp | 2 +-
src/ProbitMain.cpp | 2 +-
src/mml.cpp | 2 +-
src/omegagamma.cpp | 2 +-
src/sm.cpp | 2 +-
9 files changed, 18 insertions(+), 18 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-09-30 1.1
2013-08-20 1.0
Title: Sean Lahman's Baseball Database
Diff between Lahman versions 2.0-3 dated 2013-06-01 and 3.0-1 dated 2014-09-13
Description: This package provides the tables from Sean Lahman's
Baseball Database as a set of R data.frames. It uses the data
on pitching, hitting and fielding performance and other tables
from 1871 through 2013, as recorded in the 2014 version of the
database.
Author: Michael Friendly [aut, cre], Dennis Murphy [ctb], Martin Monkman [ctb], Chris Dalzell [ctb]
Maintainer: Michael Friendly
DESCRIPTION | 23 +++----
MD5 | 127 ++++++++++++++++++++---------------------
NEWS | 14 ++++
R/battingStats.R | 4 -
R/playerInfo.R | 4 -
R/sysdata.rda |only
data/AllstarFull.RData |binary
data/Appearances.RData |binary
data/AwardsManagers.RData |binary
data/AwardsPlayers.RData |binary
data/AwardsShareManagers.RData |binary
data/AwardsSharePlayers.RData |binary
data/Batting.RData |binary
data/BattingPost.RData |binary
data/Fielding.RData |binary
data/FieldingOF.RData |binary
data/FieldingPost.RData |binary
data/HallOfFame.RData |binary
data/LahmanData.RData |binary
data/Managers.RData |binary
data/ManagersHalf.RData |binary
data/Master.RData |binary
data/Pitching.RData |binary
data/PitchingPost.RData |binary
data/Salaries.RData |binary
data/Schools.RData |binary
data/SchoolsPlayers.RData |binary
data/SeriesPost.RData |binary
data/Teams.RData |binary
data/TeamsFranchises.RData |binary
data/TeamsHalf.RData |binary
data/battingLabels.RData |binary
data/fieldingLabels.RData |binary
data/pitchingLabels.RData |binary
inst/scripts/README.md |only
inst/scripts/lahmanData.R |only
inst/scripts/readLahman.R | 114 +++++++++++++++++++-----------------
man/AllstarFull.Rd | 4 -
man/Appearances.Rd | 4 -
man/AwardsManagers.Rd | 8 +-
man/AwardsPlayers.Rd | 4 -
man/AwardsShareManagers.Rd | 8 +-
man/AwardsSharePlayers.Rd | 4 -
man/Batting.Rd | 4 -
man/BattingPost.Rd | 4 -
man/Fielding.Rd | 4 -
man/FieldingOF.Rd | 2
man/FieldingPost.Rd | 4 -
man/HallOfFame.Rd | 20 +++---
man/Label.Rd | 4 -
man/Lahman-package.Rd | 8 +-
man/LahmanData.Rd | 4 -
man/Managers.Rd | 18 ++---
man/ManagersHalf.Rd | 4 -
man/Master.Rd | 22 +------
man/Pitching.Rd | 4 -
man/PitchingPost.Rd | 4 -
man/Salaries.Rd | 4 -
man/Schools.Rd | 2
man/SchoolsPlayers.Rd | 2
man/SeriesPost.Rd | 4 -
man/Teams.Rd | 6 -
man/TeamsFranchises.Rd | 2
man/TeamsHalf.Rd | 2
man/battingStats.Rd | 3
man/playerInfo.Rd | 4 -
66 files changed, 235 insertions(+), 218 deletions(-)
Title: Simulation of Evolutionary and Epidemiological Dynamics
Diff between seedy versions 0.1 dated 2014-07-10 and 0.2 dated 2014-09-13
Description: Suite of functions for the simulation and visualisation of bacterial evolution within- and between-host.
Author: Colin Worby
Maintainer: Colin Worby
seedy-0.1/seedy/R/simulatebacteria.R |only
seedy-0.1/seedy/man/simulatebacteria.Rd |only
seedy-0.2/seedy/DESCRIPTION | 8 -
seedy-0.2/seedy/MD5 | 28 ++--
seedy-0.2/seedy/R/diversity.range.R | 4
seedy-0.2/seedy/R/librtoDNA.R | 53 ++++++--
seedy-0.2/seedy/R/plotoutbreak.R | 12 +
seedy-0.2/seedy/R/plotsnpfreq.R |only
seedy-0.2/seedy/R/simulateoutbreak.R | 191 +++++++++++++++++++++---------
seedy-0.2/seedy/R/simulatepopulation.R |only
seedy-0.2/seedy/data/deepseq.rda |binary
seedy-0.2/seedy/man/deepseq.Rd | 2
seedy-0.2/seedy/man/librtoDNA.Rd | 9 -
seedy-0.2/seedy/man/plotoutbreak.Rd | 2
seedy-0.2/seedy/man/plotsnpfreq.Rd |only
seedy-0.2/seedy/man/seedy-package.Rd | 4
seedy-0.2/seedy/man/simulateoutbreak.Rd | 6
seedy-0.2/seedy/man/simulatepopulation.Rd |only
18 files changed, 228 insertions(+), 91 deletions(-)
Title: Reference Intervals
Diff between referenceIntervals versions 1.1 dated 2014-08-09 and 1.1.1 dated 2014-09-13
More information about referenceIntervals at CRAN
Description: This is a collection of tools to allow the medical professional to
calculate appropriate reference ranges (intervals) with confidence intervals around
the limits for diagnostic purposes.
Author: Daniel Finnegan
Maintainer: Daniel Finnegan
referenceIntervals-1.1.1/referenceIntervals/DESCRIPTION | 10 ++--
referenceIntervals-1.1.1/referenceIntervals/MD5 | 13 ++----
referenceIntervals-1.1.1/referenceIntervals/NAMESPACE | 21 +++++++++-
referenceIntervals-1.1.1/referenceIntervals/R/referenceIntervals.R | 19 +++------
referenceIntervals-1.1.1/referenceIntervals/data/sysdata.rda |only
referenceIntervals-1.1.1/referenceIntervals/man/plot.interval.Rd | 2
referenceIntervals-1.1.1/referenceIntervals/man/referenceIntervals-package.Rd | 2
referenceIntervals-1.1/referenceIntervals/data/sets.RData |only
referenceIntervals-1.1/referenceIntervals/data/tables.RData |only
9 files changed, 41 insertions(+), 26 deletions(-)
Permanent link
Title: Modelling Competitive Exclusion and Limited Dispersal in a
Statistical Phylogeographic Framework
Diff between phyloland versions 1.2 dated 2014-09-12 and 1.3 dated 2014-09-13
Description: Phyloland package models a space colonization process mapped onto a phylogeny, it aims at estimating limited dispersal and ecological competitive exclusion in a Bayesian MCMC statistical phylogeographic framework (please refer to phyloland-package help for details.)
Author: Louis Ranjard, Marie Paturel
Maintainer: Louis Ranjard
DESCRIPTION | 6 +++---
MD5 | 4 ++--
src/main.c | 14 +++++++++++---
3 files changed, 16 insertions(+), 8 deletions(-)
Title: Efficient authenticated interaction with the O*NET API.
Diff between ONETr versions 0.1-1 dated 2014-07-07 and 1.0 dated 2014-09-13
Description: This package provides a series of functions designed to enable users to easily search and interact with occupational data from the O*NET API
Author: Eric Knudsen
Maintainer: Eric Knudsen
DESCRIPTION | 8 ++++----
MD5 | 44 ++++++++++++++++++++++----------------------
R/keySearch.R | 13 +++++++++----
R/socSearch.R | 15 +++++++++------
README.md | 33 +++++++++++++++++++++++++--------
man/abilities.Rd | 2 +-
man/education.Rd | 2 +-
man/interests.Rd | 2 +-
man/jobTitles.Rd | 2 +-
man/jobZone.Rd | 2 +-
man/keySearch.Rd | 2 +-
man/knowledge.Rd | 2 +-
man/occupation.Rd | 2 +-
man/relatedOccupations.Rd | 2 +-
man/skills.Rd | 2 +-
man/socSearch.Rd | 2 +-
man/tasks.Rd | 2 +-
man/technology.Rd | 2 +-
man/tools.Rd | 2 +-
man/workActivities.Rd | 2 +-
man/workContext.Rd | 2 +-
man/workStyles.Rd | 2 +-
man/workValues.Rd | 2 +-
23 files changed, 87 insertions(+), 62 deletions(-)
Title: Statistical Analysis and Data Display: Heiberger and Holland
Diff between HH versions 3.0-4 dated 2014-03-11 and 3.1-5 dated 2014-09-13
Description: Support software for Statistical Analysis and Data Display (First Edition, Springer, ISBN 0-387-40270-5, 2004) and (Second Edition, Springer, ISBN x-xxx-xxxxx-x, anticipated 2015) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.
Author: Richard M. Heiberger
Maintainer: Richard M. Heiberger
HH-3.0-4/HH/inst/scripts/Ch02-data.r |only
HH-3.0-4/HH/inst/scripts/Ch03-conc.r |only
HH-3.0-4/HH/inst/scripts/Ch04-grap.r |only
HH-3.0-4/HH/inst/scripts/Ch05-iinf.r |only
HH-3.0-4/HH/inst/scripts/Ch06-oway.r |only
HH-3.0-4/HH/inst/scripts/Ch07-mcomp.r |only
HH-3.0-4/HH/inst/scripts/Ch08-rega.r |only
HH-3.0-4/HH/inst/scripts/Ch09-regb.r |only
HH-3.0-4/HH/inst/scripts/Ch10-regbb.r |only
HH-3.0-4/HH/inst/scripts/Ch11-regc.r |only
HH-3.0-4/HH/inst/scripts/Ch12-rhiz-bwplot-alternate.r |only
HH-3.0-4/HH/inst/scripts/Ch12-tway.r |only
HH-3.0-4/HH/inst/scripts/Ch13-dsgn.r |only
HH-3.0-4/HH/inst/scripts/Ch14-apple3.r |only
HH-3.0-4/HH/inst/scripts/Ch14-dsgntwo.r |only
HH-3.0-4/HH/inst/scripts/Ch15-twtb.r |only
HH-3.0-4/HH/inst/scripts/Ch16-npar.r |only
HH-3.0-4/HH/inst/scripts/Ch17-logi.r |only
HH-3.0-4/HH/inst/scripts/Ch18-tser.r |only
HH-3.0-4/HH/inst/scripts/sourceAll.r |only
HH-3.1-5/HH/DESCRIPTION | 29 --
HH-3.1-5/HH/MD5 | 227 ++++++++++++------
HH-3.1-5/HH/NAMESPACE | 71 +++++
HH-3.1-5/HH/NEWS | 148 +++++++++++
HH-3.1-5/HH/R/ARIMA-trellis.s | 24 -
HH-3.1-5/HH/R/HH_regsubsets.R | 26 +-
HH-3.1-5/HH/R/HHscriptnames.R |only
HH-3.1-5/HH/R/OneWayVarPlot.R |only
HH-3.1-5/HH/R/ancova.R | 11
HH-3.1-5/HH/R/ancovaplot.R |only
HH-3.1-5/HH/R/aov.ancova.R |only
HH-3.1-5/HH/R/as.matrix.listOfMatrices.R | 2
HH-3.1-5/HH/R/discreteUniform.R |only
HH-3.1-5/HH/R/glht.mmc.R | 17 -
HH-3.1-5/HH/R/hhpdf.R |only
HH-3.1-5/HH/R/hovBF.R |only
HH-3.1-5/HH/R/interaction2wt.R | 3
HH-3.1-5/HH/R/interval.R |only
HH-3.1-5/HH/R/ladder.R | 10
HH-3.1-5/HH/R/likert.formula.R | 6
HH-3.1-5/HH/R/lmplot.R |only
HH-3.1-5/HH/R/logit.R | 11
HH-3.1-5/HH/R/matrix.trellis.r |only
HH-3.1-5/HH/R/mmc.explain.R |only
HH-3.1-5/HH/R/mmcplot.R |only
HH-3.1-5/HH/R/multicomp.reverse.R | 14 -
HH-3.1-5/HH/R/odds.ratio.R | 4
HH-3.1-5/HH/R/plot.multicomp.R | 1
HH-3.1-5/HH/R/plotOddsRatio.R |only
HH-3.1-5/HH/R/rbind.trellis.R |only
HH-3.1-5/HH/R/regrDiagn.R |only
HH-3.1-5/HH/R/regrresidplot.R |only
HH-3.1-5/HH/R/residual.plots.lattice.R |only
HH-3.1-5/HH/R/transpose.trellis.R |only
HH-3.1-5/HH/R/useOuterStripsT2L1.R |only
HH-3.1-5/HH/data/Design_2.8_2.rda |binary
HH-3.1-5/HH/data/R282.y.rda |only
HH-3.1-5/HH/data/crime.rda |binary
HH-3.1-5/HH/data/jury.rda |only
HH-3.1-5/HH/data/oral.rda |only
HH-3.1-5/HH/data/uscrime.rda |binary
HH-3.1-5/HH/demo/00Index | 40 +--
HH-3.1-5/HH/demo/MMC.apple.R | 66 +----
HH-3.1-5/HH/demo/ancova.r | 129 +++-------
HH-3.1-5/HH/demo/appleAncova.R |only
HH-3.1-5/HH/demo/betaWeightedAverage.r |only
HH-3.1-5/HH/inst/scripts/hh1 |only
HH-3.1-5/HH/inst/scripts/hh2 |only
HH-3.1-5/HH/man/HH.package.Rd | 4
HH-3.1-5/HH/man/HHscriptnames.Rd |only
HH-3.1-5/HH/man/OneWayVarPlot.Rd |only
HH-3.1-5/HH/man/ResizeEtc.likertPlot.Rd | 8
HH-3.1-5/HH/man/X.residuals.Rd | 9
HH-3.1-5/HH/man/ancova-class.Rd | 2
HH-3.1-5/HH/man/ancova.Rd | 6
HH-3.1-5/HH/man/ancovaplot.Rd |only
HH-3.1-5/HH/man/anova.ancova.Rd |only
HH-3.1-5/HH/man/aov.sufficient.Rd | 16 -
HH-3.1-5/HH/man/as.likert.Rd | 16 -
HH-3.1-5/HH/man/as.multicomp.Rd | 6
HH-3.1-5/HH/man/as.vector.trellis.Rd |only
HH-3.1-5/HH/man/combineLimits.trellisvector.Rd |only
HH-3.1-5/HH/man/cp.Rd | 2
HH-3.1-5/HH/man/cplx.Rd |only
HH-3.1-5/HH/man/datasets.Rd | 5
HH-3.1-5/HH/man/diagQQ.Rd |only
HH-3.1-5/HH/man/diagplot5new.Rd |only
HH-3.1-5/HH/man/discreteUniform.Rd |only
HH-3.1-5/HH/man/hh.Rd | 2
HH-3.1-5/HH/man/hhpdf.Rd |only
HH-3.1-5/HH/man/hov.Rd | 2
HH-3.1-5/HH/man/hovBF.Rd |only
HH-3.1-5/HH/man/interaction2wt.Rd | 5
HH-3.1-5/HH/man/interval.Rd |only
HH-3.1-5/HH/man/ladder.Rd | 7
HH-3.1-5/HH/man/latticeresids.Rd |only
HH-3.1-5/HH/man/likert.Rd | 8
HH-3.1-5/HH/man/lm.case.Rd | 4
HH-3.1-5/HH/man/lmplot.Rd |only
HH-3.1-5/HH/man/logit.Rd | 20 +
HH-3.1-5/HH/man/matrix.trellis.Rd |only
HH-3.1-5/HH/man/mmc.Rd | 136 +++++-----
HH-3.1-5/HH/man/mmc.mean.Rd | 19 -
HH-3.1-5/HH/man/mmcAspect.Rd |only
HH-3.1-5/HH/man/mmcPruneIsomeans.Rd |only
HH-3.1-5/HH/man/mmcisomeans.Rd |only
HH-3.1-5/HH/man/mmcplot.Rd |only
HH-3.1-5/HH/man/multicomp.order.Rd | 4
HH-3.1-5/HH/man/multicomp.reverse.Rd | 4
HH-3.1-5/HH/man/objip.Rd | 4
HH-3.1-5/HH/man/odds.ratio.Rd | 49 ++-
HH-3.1-5/HH/man/panel.cartesian.Rd | 2
HH-3.1-5/HH/man/panel.confintMMC.Rd |only
HH-3.1-5/HH/man/panel.isomeans.Rd |only
HH-3.1-5/HH/man/plot.hov.Rd | 2
HH-3.1-5/HH/man/plot.mmc.multicomp.Rd | 16 -
HH-3.1-5/HH/man/plot.multicomp.Rd | 5
HH-3.1-5/HH/man/positioned-class.Rd | 2
HH-3.1-5/HH/man/print.latticeresids.Rd |only
HH-3.1-5/HH/man/rbind.trellis.Rd |only
HH-3.1-5/HH/man/regr1.plot.Rd | 2
HH-3.1-5/HH/man/regr2.plot.Rd | 8
HH-3.1-5/HH/man/regrresidplot.Rd |only
HH-3.1-5/HH/man/resid.squares.Rd | 2
HH-3.1-5/HH/man/residVSfitted.Rd |only
HH-3.1-5/HH/man/residual.plots.Rd | 5
HH-3.1-5/HH/man/residual.plots.lattice.Rd |only
HH-3.1-5/HH/man/t.trellis.Rd | 2
HH-3.1-5/HH/man/useOuterStripsT2L1.Rd |only
HH-3.1-5/HH/man/vif.Rd | 6
130 files changed, 751 insertions(+), 478 deletions(-)
Title: Generalized Estimating Equation Package
Diff between geepack versions 1.1-6 dated 2012-01-27 and 1.2-0 dated 2014-09-13
Description: Generalized estimating equations solver for parameters in
mean, scale, and correlation structures, through mean link,
scale link, and correlation link. Can also handle clustered
categorical responses.
Author: Søren Højsgaard,
Maintainer: Søren Højsgaard
geepack-1.1-6/geepack/Wishlist |only
geepack-1.1-6/geepack/geepack-Ex.R |only
geepack-1.2-0/geepack/ChangeLog | 10 ++
geepack-1.2-0/geepack/DESCRIPTION | 14 +--
geepack-1.2-0/geepack/MD5 | 13 +--
geepack-1.2-0/geepack/build |only
geepack-1.2-0/geepack/inst/doc/geepack-manual.R |only
geepack-1.2-0/geepack/inst/doc/geepack-manual.Rnw | 83 +++++++++++++---------
geepack-1.2-0/geepack/inst/doc/geepack-manual.pdf |binary
geepack-1.2-0/geepack/vignettes |only
10 files changed, 74 insertions(+), 46 deletions(-)