Title: Linear mixed effect model splines for modelling and analysis of
time course data
Diff between lmms versions 1.1 dated 2014-09-11 and 1.2 dated 2014-11-20
Description: The package implements linear mixed effect model splines for
modelling and differential expression for highly dimensional data sets:
investNoise for quality control and filterNoise for removing
non-informative trajectories; lmmSpline to model time course expression
profiles and lmmsDE performs differential expression analysis to identify
differential expression between groups, time and/or time x group
interaction.
Author: Jasmin Straube, Kim-Anh Le Cao and Emma Huang with contributions of
Dominique Gorse
Maintainer: Jasmin Straube
DESCRIPTION | 8 -
INDEX |only
MD5 | 49 ++++-----
NAMESPACE | 3
R/AllClasses.R | 11 +-
R/filterNoise-method.R | 5
R/lmmsDE-method.R | 216 +++++++++++++++++++++++++++---------------
R/plot.lmmsde-method.R | 111 ++++++++++++++++++++-
R/plot.noise-method.R | 6 -
data/kidneySimTimeGroup.RData |binary
man/deriv.lmmspline.Rd | 2
man/filterNoise-methods.Rd | 2
man/investNoise-methods.Rd | 2
man/lmmSpline-methods.Rd | 2
man/lmms-class.Rd | 2
man/lmmsDE-methods.Rd | 14 --
man/lmmsde-class.Rd | 14 ++
man/lmmspline-class.Rd | 2
man/noise-class.Rd | 2
man/plot.lmmsde.Rd | 25 ++++
man/plot.lmmspline.Rd | 2
man/plot.noise.Rd | 8 -
man/predict.lmmspline.Rd | 2
man/summary.lmmsde.Rd | 2
man/summary.lmmspline.Rd | 2
man/summary.noise.Rd | 2
26 files changed, 348 insertions(+), 146 deletions(-)
Title: Probabilistic Population Projection
Diff between bayesPop versions 5.1-5 dated 2014-08-13 and 5.2-1 dated 2014-11-20
Description: The package allows to generate population projections for all countries of the world using several probabilistic components, such as total fertility rate (TFR) and life expectancy.
Author: Hana Sevcikova, Adrian Raftery
Maintainer: Hana Sevcikova
ChangeLog | 12 ++++
DESCRIPTION | 8 +-
MD5 | 20 +++---
R/adjustments.R | 30 +++++++---
R/plot_functions.R | 19 +++---
R/predict.pop.R | 135 ++++++++++++++++++++++++++++++---------------
man/bayesPop-package.Rd | 4 -
man/pop.pyramid.Rd | 6 +-
man/predict.pop.Rd | 3 -
src/projection_functions.c | 33 +++++++----
tests/run_tests.R | 8 +-
11 files changed, 181 insertions(+), 97 deletions(-)
Title: Amdahl's profiler, directed optimization made easy.
Diff between aprof versions 0.2.1 dated 2014-07-02 and 0.2.4 dated 2014-11-20
Description: Assists the evaluation of whether and
where to focus code optimization, using Amdahl's law and visual aids
based on line profiling. Amdahl's profiler organises profiling output
files (will soon include memory profiling) in a visually appealing
way. It is meant to help to balance development vs. execution time
by helping to identify the most promising sections of code to
optimize and projecting potential gains. The package is an addition
to R's standard profiling tools and is not a wrapper for them.
Author: Marco D. Visser
Maintainer: Marco D. Visser
DESCRIPTION | 8 +--
MD5 | 4 -
R/aprof.R | 137 ++++++++++++++++++++++++++++++++++++++----------------------
3 files changed, 93 insertions(+), 56 deletions(-)
Title: OCI based Oracle database interface for R
Diff between ROracle versions 1.1-11 dated 2014-03-04 and 1.1-12 dated 2014-11-20
Description: Oracle database interface (DBI) driver for R.
This is a DBI-compliant Oracle driver based on the OCI.
Author: Denis Mukhin, David A. James and Jake Luciani
Maintainer: Denis Mukhin
DESCRIPTION | 8
INSTALL | 20 -
MD5 | 96 +++---
NEWS | 36 ++
R/dbi.R | 26 -
R/oci.R | 165 +++++++++-
configure | 18 -
configure.ac | 2
inst/Copyrights | 2
inst/doc/man/de/ExtDriver-class.Rd |only
inst/doc/man/de/dbGetInfo-methods.Rd | 2
inst/doc/man/de/dbReadTable-methods.Rd | 13
inst/doc/man/en/OraConnection-class.Rd | 4
inst/doc/man/en/dbConnect-methods.Rd | 92 +++---
inst/doc/man/en/dbGetInfo-methods.Rd | 233 ++++++++++++++-
inst/doc/man/en/dbReadTable-methods.Rd | 184 +++++++++---
inst/doc/man/en/dbSendQuery-methods.Rd | 76 ++--
inst/doc/man/es/ExtDriver-class.Rd |only
inst/doc/man/es/dbGetInfo-methods.Rd | 2
inst/doc/man/es/dbReadTable-methods.Rd | 11
inst/doc/man/fr/ExtDriver-class.Rd |only
inst/doc/man/fr/dbGetInfo-methods.Rd | 2
inst/doc/man/fr/dbReadTable-methods.Rd | 11
inst/doc/man/it/ExtDriver-class.Rd |only
inst/doc/man/it/dbGetInfo-methods.Rd | 2
inst/doc/man/it/dbReadTable-methods.Rd | 13
inst/doc/man/ja/ExtDriver-class.Rd |only
inst/doc/man/ja/dbGetInfo-methods.Rd | 2
inst/doc/man/ja/dbReadTable-methods.Rd | 9
inst/doc/man/ko/ExtDriver-class.Rd |only
inst/doc/man/ko/dbGetInfo-methods.Rd | 2
inst/doc/man/ko/dbReadTable-methods.Rd | 15
inst/doc/man/pt_BR/ExtDriver-class.Rd |only
inst/doc/man/pt_BR/dbGetInfo-methods.Rd | 2
inst/doc/man/pt_BR/dbReadTable-methods.Rd | 11
inst/doc/man/zh_CN/ExtDriver-class.Rd |only
inst/doc/man/zh_CN/dbGetInfo-methods.Rd | 2
inst/doc/man/zh_CN/dbReadTable-methods.Rd | 13
inst/doc/man/zh_TW/ExtDriver-class.Rd |only
inst/doc/man/zh_TW/dbGetInfo-methods.Rd | 2
inst/doc/man/zh_TW/dbReadTable-methods.Rd | 13
man/OraConnection-class.Rd | 4
man/dbConnect-methods.Rd | 92 +++---
man/dbGetInfo-methods.Rd | 233 ++++++++++++++-
man/dbReadTable-methods.Rd | 184 +++++++++---
man/dbSendQuery-methods.Rd | 76 ++--
po/de.po |only
po/es.po |only
po/fr.po |only
po/it.po |only
po/ja.po |only
po/ko.po |only
po/pt_BR.po |only
po/zh_CN.po |only
po/zh_TW.po |only
src/rodbi.c | 458 ++++++++++++++++++++----------
src/rooci.c | 369 +++++-------------------
src/rooci.h | 42 +-
58 files changed, 1759 insertions(+), 788 deletions(-)
Title: Plot a Model's Response While Varying the Values of the
Predictors
Diff between plotmo versions 1.3-3 dated 2014-02-04 and 2.0.0 dated 2014-11-20
Description: Plot a model's response when varying one or two predictors
while holding the other predictors constant. A poor man's
partial dependence plot.
Author: Stephen Milborrow
Maintainer: Stephen Milborrow
plotmo-1.3-3/plotmo/inst/slowtests/fast.postscript.R |only
plotmo-2.0.0/plotmo/DESCRIPTION | 10
plotmo-2.0.0/plotmo/MD5 | 60
plotmo-2.0.0/plotmo/NAMESPACE | 4
plotmo-2.0.0/plotmo/NEWS | 43
plotmo-2.0.0/plotmo/R/grid.R | 16
plotmo-2.0.0/plotmo/R/lib.R | 37
plotmo-2.0.0/plotmo/R/plotmo.R | 487 +-
plotmo-2.0.0/plotmo/R/plotmo.methods.R | 57
plotmo-2.0.0/plotmo/R/plotmo.methods.gbm.R | 8
plotmo-2.0.0/plotmo/R/plotmo.methods.misc.R | 53
plotmo-2.0.0/plotmo/R/plotmo.methods.quantreg.R |only
plotmo-2.0.0/plotmo/R/plotmo.methods.rpart.R | 9
plotmo-2.0.0/plotmo/R/plotmo.pint.R |only
plotmo-2.0.0/plotmo/inst/slowtests/README.txt | 5
plotmo-2.0.0/plotmo/inst/slowtests/make.bat | 9
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.R | 159
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.Rout.save | 2102 +++++-----
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.bat | 2
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.center.R | 7
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.center.Rout.save | 14
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.center.bat | 2
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.emma.R |only
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.emma.Rout.save |only
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.emma.bat |only
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.fac.R | 3
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.fac.Rout.save | 7
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.fac.bat | 2
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.non.earth.R | 105
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.non.earth.Rout.save | 308 -
plotmo-2.0.0/plotmo/inst/slowtests/test.plotmo.non.earth.bat | 2
plotmo-2.0.0/plotmo/man/plotmo.Rd | 275 -
plotmo-2.0.0/plotmo/man/plotmo.methods.Rd | 13
plotmo-2.0.0/plotmo/tests/test.plotmo.Rout.save | 1
34 files changed, 2125 insertions(+), 1675 deletions(-)
Title: Reliable Accurate Prenatal non-Invasive Diagnosis R package
Diff between RAPIDR versions 0.1 dated 2014-03-07 and 0.1.1 dated 2014-11-20
Description: Package to perform non-invasive fetal testing for aneuploidies
using sequencing count data from cell-free DNA
Author: Kitty Lo
Maintainer: Kitty Lo
RAPIDR-0.1.1/RAPIDR/DESCRIPTION | 14 -
RAPIDR-0.1.1/RAPIDR/MD5 | 60 ++++----
RAPIDR-0.1.1/RAPIDR/NAMESPACE | 7
RAPIDR-0.1.1/RAPIDR/NEWS |only
RAPIDR-0.1.1/RAPIDR/R/PCA.R | 43 ++++-
RAPIDR-0.1.1/RAPIDR/R/createReference.R | 100 ++++++++++---
RAPIDR-0.1.1/RAPIDR/R/gcContent-data.R |only
RAPIDR-0.1.1/RAPIDR/R/helpFunctions.R | 119 ----------------
RAPIDR-0.1.1/RAPIDR/R/testUnknowns.R | 6
RAPIDR-0.1.1/RAPIDR/build/vignette.rds |binary
RAPIDR-0.1.1/RAPIDR/data/datalist | 1
RAPIDR-0.1.1/RAPIDR/data/gcContent.rda |only
RAPIDR-0.1.1/RAPIDR/data/outcomes.rda |binary
RAPIDR-0.1.1/RAPIDR/inst/doc/rapidr-vignette.R | 1
RAPIDR-0.1.1/RAPIDR/inst/doc/rapidr-vignette.pdf |binary
RAPIDR-0.1.1/RAPIDR/inst/doc/rapidr-vignette.rnw | 8 -
RAPIDR-0.1.1/RAPIDR/man/BinBam.Rd | 9 -
RAPIDR-0.1.1/RAPIDR/man/ReadBed.Rd | 3
RAPIDR-0.1.1/RAPIDR/man/createReferenceSetFromCounts.Rd | 56 +++----
RAPIDR-0.1.1/RAPIDR/man/evalPerformance.Rd | 16 --
RAPIDR-0.1.1/RAPIDR/man/gcContent.Rd |only
RAPIDR-0.1.1/RAPIDR/man/makeBinnedCountsFile.Rd | 27 +--
RAPIDR-0.1.1/RAPIDR/man/makeGCContentData.Rd | 7
RAPIDR-0.1.1/RAPIDR/man/makeGCContentPerPos.Rd | 7
RAPIDR-0.1.1/RAPIDR/man/outcomes.Rd | 1
RAPIDR-0.1.1/RAPIDR/man/plotTestSample.Rd | 15 --
RAPIDR-0.1.1/RAPIDR/man/print.rapidr.ref.Rd | 7
RAPIDR-0.1.1/RAPIDR/man/print.rapidr.test.Rd | 6
RAPIDR-0.1.1/RAPIDR/man/testUnknowns.Rd | 38 ++---
RAPIDR-0.1.1/RAPIDR/man/writeCleanedCountsFile.Rd | 26 +--
RAPIDR-0.1.1/RAPIDR/man/writeResultsToFile.Rd | 8 -
RAPIDR-0.1.1/RAPIDR/vignettes/rapidr-vignette.rnw | 8 -
RAPIDR-0.1/RAPIDR/data/gcContent.RData |only
RAPIDR-0.1/RAPIDR/man/BinBam.gcCorrect.Rd |only
34 files changed, 276 insertions(+), 317 deletions(-)
Title: Choice of the Hyperparameter Omega in the Bayesian Adjustment
for Confounding (BAC) Algorithm
Diff between BACprior versions 1.2.1 dated 2013-02-16 and 2.0 dated 2014-11-20
Description: The BACprior package provides an approximate sensitivity analysis of the
Bayesian Adjustment for Confounding (BAC) algorithm (Wang et al., 2012) with regards to the
hyperparameter omega. The package also provides functions to guide the user in their choice
of an appropriate omega value. The method is based on Lefebvre, Atherton and Talbot (2014).
Author: Denis Talbot, Geneviève Lefebvre, Juli Atherton
Maintainer: Denis Talbot
BACprior-1.2.1/BACprior/BACprior-Ex.R |only
BACprior-2.0/BACprior/ChangeLog | 8 ++++
BACprior-2.0/BACprior/DESCRIPTION | 27 +++++++--------
BACprior-2.0/BACprior/MD5 | 17 +++++-----
BACprior-2.0/BACprior/NAMESPACE | 3 +
BACprior-2.0/BACprior/R/BACprior.CV.R |only
BACprior-2.0/BACprior/R/BACprior.boot.R |only
BACprior-2.0/BACprior/R/BACprior.lm.R | 6 +--
BACprior-2.0/BACprior/man/BACprior-package.Rd | 24 ++++++--------
BACprior-2.0/BACprior/man/BACprior.CV.Rd |only
BACprior-2.0/BACprior/man/BACprior.boot.Rd |only
BACprior-2.0/BACprior/man/BACprior.lm.Rd | 44 +++++++++++++-------------
12 files changed, 68 insertions(+), 61 deletions(-)
Title: Intermittent Time Series Forecasting
Diff between tsintermittent versions 1.4 dated 2014-10-03 and 1.5 dated 2014-11-20
More information about tsintermittent at CRAN
Description: This package contains functions for analysing and forecasting intermittent demand/slow moving items time series.
Author: Nikolaos Kourentzes and Fotios Petropoulos
Maintainer: Nikolaos Kourentzes
ChangeLog | 3 +++
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/crost.ma.R | 6 +++---
4 files changed, 13 insertions(+), 10 deletions(-)
Permanent link
Title: Identification of dichotomous differential item functioning
(DIF) using Angoff's Delta Plot method
Diff between deltaPlotR versions 1.4 dated 2014-07-22 and 1.5 dated 2014-11-20
Description: The deltaPlotR package proposes an implementation of Angoff's Delta Plot method to detect dichotomous DIF. Several detection thresholds are included, either from multivariate normality assumption or by prior determination. Item purification is supported.
Author: David Magis (U Liege), Bruno Facon (Univ Lille-Nord de France)
Maintainer: David Magis
DESCRIPTION | 8 +--
MD5 | 16 +++---
NEWS | 23 +++++++--
R/diagPlot.R | 4 -
man/adjustExtreme.Rd | 36 ++++-----------
man/deltaPlot.Rd | 108 ++++++++++++++--------------------------------
man/deltaPlotR-package.Rd | 7 +-
man/diagPlot.Rd | 31 ++++---------
man/verbal.rd | 12 +----
9 files changed, 95 insertions(+), 150 deletions(-)
Title: Microsoft Word, Microsoft Powerpoint and HTML documents
generation from R
Diff between ReporteRs versions 0.6.0 dated 2014-08-13 and 0.7.0 dated 2014-11-20
Description: An R package for creating Microsoft Word document (>=2007),
Microsoft Powerpoint document (>=2007) and HTML documents from R. There are
several features to let you format and present R outputs ; e.g. Editable
Vector Graphics, functions for complex tables reporting, reuse of corporate
template document (*.docx and *.pptx). You can use the package as a tool
for fast reporting and as a tool for reporting automation. The package does
not require any installation of Microsoft product to be able to write
Microsoft files (docx and pptx).
Author: David Gohel [aut, cre],
Bootstrap [ctb, cph] (Bootstrap development team),
jQuery [ctb, cph] (The jQuery Foundation),
Dmitry Baranovskiy [ctb, cph] (raphael and g.raphael javascript
libraries)
Maintainer: David Gohel
ReporteRs-0.6.0/ReporteRs/R/addFlexTable.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addImage.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addPage.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addParagraph.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addPlot.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addRScript.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addTable.docx.R |only
ReporteRs-0.6.0/ReporteRs/R/addTable.html.R |only
ReporteRs-0.6.0/ReporteRs/R/addTable.pptx.R |only
ReporteRs-0.6.0/ReporteRs/R/addTitle.html.R |only
ReporteRs-0.6.0/ReporteRs/R/html.R |only
ReporteRs-0.6.0/ReporteRs/R/print.html.R |only
ReporteRs-0.6.0/ReporteRs/R/tableProperties.R |only
ReporteRs-0.6.0/ReporteRs/R/themes.tableProperties.R |only
ReporteRs-0.6.0/ReporteRs/R/writeDoc.html.R |only
ReporteRs-0.6.0/ReporteRs/data/data_ReporteRs.RData |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap-theme.css |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap-theme.css.map |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap-theme.min.css |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap.css |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap.css.map |only
ReporteRs-0.6.0/ReporteRs/inst/java/ReporteRs-0.6.jar |only
ReporteRs-0.6.0/ReporteRs/java/README |only
ReporteRs-0.6.0/ReporteRs/java/ReporteRs-0.6-src.jar |only
ReporteRs-0.6.0/ReporteRs/man/addFlexTable.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addImage.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addPage.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addPage.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addParagraph.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addPlot.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addRScript.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addTable.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addTable.docx.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addTable.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addTable.pptx.Rd |only
ReporteRs-0.6.0/ReporteRs/man/addTitle.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/data_ReporteRs.Rd |only
ReporteRs-0.6.0/ReporteRs/man/get.default.tableProperties.Rd |only
ReporteRs-0.6.0/ReporteRs/man/get.greenheader.tableProperties.Rd |only
ReporteRs-0.6.0/ReporteRs/man/get.light.tableProperties.Rd |only
ReporteRs-0.6.0/ReporteRs/man/html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/print.html.Rd |only
ReporteRs-0.6.0/ReporteRs/man/tableProperties.Rd |only
ReporteRs-0.6.0/ReporteRs/man/writeDoc.html.Rd |only
ReporteRs-0.7.0/ReporteRs/DESCRIPTION | 8
ReporteRs-0.7.0/ReporteRs/MD5 | 310 +-
ReporteRs-0.7.0/ReporteRs/NAMESPACE | 48
ReporteRs-0.7.0/ReporteRs/NEWS | 111
ReporteRs-0.7.0/ReporteRs/R/00_AllGeneric.R | 272 -
ReporteRs-0.7.0/ReporteRs/R/01_tools.R | 369 --
ReporteRs-0.7.0/ReporteRs/R/BootstrapMenu.R |only
ReporteRs-0.7.0/ReporteRs/R/DropDownMenu.R |only
ReporteRs-0.7.0/ReporteRs/R/FlexCell.R | 18
ReporteRs-0.7.0/ReporteRs/R/FlexRow.R | 7
ReporteRs-0.7.0/ReporteRs/R/FlexTable.R | 99
ReporteRs-0.7.0/ReporteRs/R/FlexTableFormatTools.R | 42
ReporteRs-0.7.0/ReporteRs/R/FlexTablePublicAPI.R | 311 +-
ReporteRs-0.7.0/ReporteRs/R/FlexTable_theme.R |only
ReporteRs-0.7.0/ReporteRs/R/Footnote.R |only
ReporteRs-0.7.0/ReporteRs/R/Lists.R |only
ReporteRs-0.7.0/ReporteRs/R/RScript.R | 8
ReporteRs-0.7.0/ReporteRs/R/ReporteRs.R | 76
ReporteRs-0.7.0/ReporteRs/R/Section.R | 8
ReporteRs-0.7.0/ReporteRs/R/add.plot.interactivity.R | 9
ReporteRs-0.7.0/ReporteRs/R/addBootstrapMenu.R |only
ReporteRs-0.7.0/ReporteRs/R/addDate.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addFlexTable.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addFlexTable.docx.R | 7
ReporteRs-0.7.0/ReporteRs/R/addFlexTable.pptx.R | 12
ReporteRs-0.7.0/ReporteRs/R/addFooter.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addFooter.pptx.R | 6
ReporteRs-0.7.0/ReporteRs/R/addIframe.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addImage.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addImage.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addImage.pptx.R | 9
ReporteRs-0.7.0/ReporteRs/R/addLinkItem.R |only
ReporteRs-0.7.0/ReporteRs/R/addMarkdown.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addMarkdown.docx.R |only
ReporteRs-0.7.0/ReporteRs/R/addMarkdown.pptx.R |only
ReporteRs-0.7.0/ReporteRs/R/addPageBreak.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addPageNumber.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addParagraph.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addParagraph.docx.R | 63
ReporteRs-0.7.0/ReporteRs/R/addParagraph.pptx.R | 74
ReporteRs-0.7.0/ReporteRs/R/addPlot.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addPlot.docx.R | 2
ReporteRs-0.7.0/ReporteRs/R/addPlot.pptx.R | 11
ReporteRs-0.7.0/ReporteRs/R/addRScript.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addRScript.docx.R | 3
ReporteRs-0.7.0/ReporteRs/R/addRScript.pptx.R | 13
ReporteRs-0.7.0/ReporteRs/R/addSlide.pptx.R | 40
ReporteRs-0.7.0/ReporteRs/R/addSubtitle.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addTOC.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addTitle.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/addTitle.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/addTitle.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/R/as.html.FlexTable.R |only
ReporteRs-0.7.0/ReporteRs/R/borderProperties.R | 7
ReporteRs-0.7.0/ReporteRs/R/bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/cellProperties.R | 132
ReporteRs-0.7.0/ReporteRs/R/dim.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/dim.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/R/docx.R | 26
ReporteRs-0.7.0/ReporteRs/R/is.color.R | 4
ReporteRs-0.7.0/ReporteRs/R/java_description.R | 19
ReporteRs-0.7.0/ReporteRs/R/markdown.api.R |only
ReporteRs-0.7.0/ReporteRs/R/parProperties.R | 307 +-
ReporteRs-0.7.0/ReporteRs/R/pot.R | 56
ReporteRs-0.7.0/ReporteRs/R/pptx.R | 36
ReporteRs-0.7.0/ReporteRs/R/print.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/print.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/R/raphael.html.R |only
ReporteRs-0.7.0/ReporteRs/R/set_of_pot.R | 21
ReporteRs-0.7.0/ReporteRs/R/slide.layouts.pptx.R | 40
ReporteRs-0.7.0/ReporteRs/R/styles.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/textProperties.R | 71
ReporteRs-0.7.0/ReporteRs/R/toc.options.R | 4
ReporteRs-0.7.0/ReporteRs/R/writeDoc.bsdoc.R |only
ReporteRs-0.7.0/ReporteRs/R/writeDoc.docx.R | 4
ReporteRs-0.7.0/ReporteRs/R/writeDoc.pptx.R | 4
ReporteRs-0.7.0/ReporteRs/inst/COPYRIGHTS | 12
ReporteRs-0.7.0/ReporteRs/inst/bootstrap/css/bootstrap.min.css | 2
ReporteRs-0.7.0/ReporteRs/inst/bootstrap/css/docs.min.css | 1534 ----------
ReporteRs-0.7.0/ReporteRs/inst/java/ReporteRs-0.7.jar |only
ReporteRs-0.7.0/ReporteRs/java/ReporteRs-0.7-src.jar |only
ReporteRs-0.7.0/ReporteRs/man/BootstrapMenu.Rd |only
ReporteRs-0.7.0/ReporteRs/man/DropDownMenu.Rd |only
ReporteRs-0.7.0/ReporteRs/man/FlexCell.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/FlexRow.Rd | 7
ReporteRs-0.7.0/ReporteRs/man/FlexTable-alter.Rd | 85
ReporteRs-0.7.0/ReporteRs/man/FlexTable.Rd | 232 -
ReporteRs-0.7.0/ReporteRs/man/Footnote.Rd |only
ReporteRs-0.7.0/ReporteRs/man/RScript.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/ReporteRs-package.Rd | 71
ReporteRs-0.7.0/ReporteRs/man/add.plot.interactivity.Rd | 7
ReporteRs-0.7.0/ReporteRs/man/add.pot.Rd | 6
ReporteRs-0.7.0/ReporteRs/man/addBootstrapMenu.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addFlexTable.Rd | 4
ReporteRs-0.7.0/ReporteRs/man/addFlexTable.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addFlexTable.docx.Rd | 104
ReporteRs-0.7.0/ReporteRs/man/addFlexTable.pptx.Rd | 113
ReporteRs-0.7.0/ReporteRs/man/addFooter.Rd | 6
ReporteRs-0.7.0/ReporteRs/man/addFooter.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addFooter.pptx.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/addFooterRow.Rd | 13
ReporteRs-0.7.0/ReporteRs/man/addHeaderRow.Rd | 14
ReporteRs-0.7.0/ReporteRs/man/addIframe.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addIframe.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addImage.Rd | 4
ReporteRs-0.7.0/ReporteRs/man/addImage.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addJavascript.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addLinkItem.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addMarkdown.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addMarkdown.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addMarkdown.docx.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addMarkdown.pptx.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addParagraph.Footnote.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addParagraph.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/addParagraph.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addParagraph.docx.Rd | 57
ReporteRs-0.7.0/ReporteRs/man/addParagraph.pptx.Rd | 82
ReporteRs-0.7.0/ReporteRs/man/addPlot.Rd | 10
ReporteRs-0.7.0/ReporteRs/man/addPlot.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addPlot.pptx.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/addRScript.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/addRScript.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/addRScript.pptx.Rd | 8
ReporteRs-0.7.0/ReporteRs/man/addSection.docx.Rd | 5
ReporteRs-0.7.0/ReporteRs/man/addSlide.pptx.Rd | 8
ReporteRs-0.7.0/ReporteRs/man/addTitle.Rd | 4
ReporteRs-0.7.0/ReporteRs/man/addTitle.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/as.html.FlexTable.Rd | 25
ReporteRs-0.7.0/ReporteRs/man/borderProperties.Rd | 4
ReporteRs-0.7.0/ReporteRs/man/bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/cellProperties.Rd | 11
ReporteRs-0.7.0/ReporteRs/man/chprop.borderProperties.Rd | 3
ReporteRs-0.7.0/ReporteRs/man/chprop.cellProperties.Rd | 71
ReporteRs-0.7.0/ReporteRs/man/chprop.parProperties.Rd | 37
ReporteRs-0.7.0/ReporteRs/man/chprop.textProperties.Rd | 23
ReporteRs-0.7.0/ReporteRs/man/doc-list-settings.Rd |only
ReporteRs-0.7.0/ReporteRs/man/docx-bookmark.Rd | 15
ReporteRs-0.7.0/ReporteRs/man/docx.Rd | 92
ReporteRs-0.7.0/ReporteRs/man/light.table.Rd |only
ReporteRs-0.7.0/ReporteRs/man/parProperties.Rd | 56
ReporteRs-0.7.0/ReporteRs/man/pot.Rd | 27
ReporteRs-0.7.0/ReporteRs/man/pptx.Rd | 64
ReporteRs-0.7.0/ReporteRs/man/print.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/man/print.textProperties.Rd | 2
ReporteRs-0.7.0/ReporteRs/man/raphael.html.Rd | 12
ReporteRs-0.7.0/ReporteRs/man/setColumnsColors.Rd | 11
ReporteRs-0.7.0/ReporteRs/man/setFlexTableBackgroundColors.Rd |only
ReporteRs-0.7.0/ReporteRs/man/setFlexTableBorders.Rd | 12
ReporteRs-0.7.0/ReporteRs/man/setFlexTableWidths.Rd | 12
ReporteRs-0.7.0/ReporteRs/man/setRowsColors.Rd | 11
ReporteRs-0.7.0/ReporteRs/man/setZebraStyle.Rd | 12
ReporteRs-0.7.0/ReporteRs/man/set_of_paragraphs.Rd | 4
ReporteRs-0.7.0/ReporteRs/man/slide.layouts.pptx.Rd | 20
ReporteRs-0.7.0/ReporteRs/man/spanFlexTableColumns.Rd | 29
ReporteRs-0.7.0/ReporteRs/man/spanFlexTableRows.Rd | 10
ReporteRs-0.7.0/ReporteRs/man/textProperties.Rd | 31
ReporteRs-0.7.0/ReporteRs/man/vanilla.table.Rd |only
ReporteRs-0.7.0/ReporteRs/man/writeDoc.Rd | 4
ReporteRs-0.7.0/ReporteRs/man/writeDoc.bsdoc.Rd |only
ReporteRs-0.7.0/ReporteRs/src/PPTX.cpp | 2
204 files changed, 2595 insertions(+), 3124 deletions(-)
Title: X12 - Graphical User Interface
Diff between x12GUI versions 0.12.0 dated 2014-02-24 and 0.13.0 dated 2014-11-20
Description: A graphical user interface for the x12 package
Author: Daniel Schopfhauser, Alexander Kowarik
Maintainer: Alexander Kowarik
DESCRIPTION | 8 ++++----
MD5 | 5 +++--
inst |only
man/x12GUI.Rd | 6 +++++-
4 files changed, 12 insertions(+), 7 deletions(-)
Title: x12 - wrapper function and structure for batch processing
Diff between x12 versions 1.5.0 dated 2014-02-24 and 1.6.0 dated 2014-11-20
Description: A wrapper function and GUI for the X12 binaries
Author: Alexander Kowarik
Maintainer: Alexander Kowarik
DESCRIPTION | 12 ++++++------
MD5 | 13 +++++++------
NEWS | 2 ++
R/x12-methods.R | 4 ++--
inst |only
man/x12-methods.Rd | 7 ++++++-
man/x12Batch-class.Rd | 5 +++++
man/x12work.Rd | 5 +++++
8 files changed, 33 insertions(+), 15 deletions(-)
Title: CCMN and other noRMalizatioN methods for metabolomics data
Diff between crmn versions 0.0.19 dated 2012-07-13 and 0.0.20 dated 2014-11-20
Description: Implements the Cross-contribution Compensating Multiple
standard Normalization (CCMN) method and other normalization
algorithms.
Author: Henning Redestig
Maintainer: Henning Redestig
crmn-0.0.19/crmn/man/makeX.Rd |only
crmn-0.0.19/crmn/man/makeX_eset.Rd |only
crmn-0.0.19/crmn/man/makeX_other.Rd |only
crmn-0.0.19/crmn/man/method.Rd |only
crmn-0.0.19/crmn/man/mexprs.Rd |only
crmn-0.0.19/crmn/man/mexprs_bla.Rd |only
crmn-0.0.19/crmn/man/model.Rd |only
crmn-0.0.19/crmn/man/sFit.Rd |only
crmn-0.0.19/crmn/man/set_mexprs.Rd |only
crmn-0.0.20/crmn/DESCRIPTION | 16 ++---
crmn-0.0.20/crmn/MD5 | 71 ++++++++++++------------
crmn-0.0.20/crmn/NAMESPACE | 5 +
crmn-0.0.20/crmn/R/crmn-package.R | 3 +
crmn-0.0.20/crmn/R/generic.R | 59 +++++++++++---------
crmn-0.0.20/crmn/R/misc.R | 6 --
crmn-0.0.20/crmn/R/norm.R | 3 -
crmn-0.0.20/crmn/build |only
crmn-0.0.20/crmn/data/mix.rda |binary
crmn-0.0.20/crmn/inst/doc/crmn.R |only
crmn-0.0.20/crmn/man/analytes.Rd | 19 +++---
crmn-0.0.20/crmn/man/analytes_eset.Rd | 22 +++----
crmn-0.0.20/crmn/man/analytes_other.Rd | 17 +++--
crmn-0.0.20/crmn/man/crmn.Rd | 25 +++++---
crmn-0.0.20/crmn/man/dropunusedlevels.Rd | 9 +--
crmn-0.0.20/crmn/man/makeX-methods.Rd |only
crmn-0.0.20/crmn/man/method-methods.Rd |only
crmn-0.0.20/crmn/man/mexprs-methods.Rd |only
crmn-0.0.20/crmn/man/mexprs-rep-methods.Rd |only
crmn-0.0.20/crmn/man/mix.Rd | 14 ++--
crmn-0.0.20/crmn/man/model-methods.Rd |only
crmn-0.0.20/crmn/man/nFit.Rd | 5 +
crmn-0.0.20/crmn/man/normFit.Rd | 84 +++++++++++++----------------
crmn-0.0.20/crmn/man/normPred.Rd | 45 +++++++--------
crmn-0.0.20/crmn/man/normalize.Rd | 24 ++++----
crmn-0.0.20/crmn/man/pcaMuffle.Rd | 20 +++---
crmn-0.0.20/crmn/man/plot.nFit.Rd | 30 +++++-----
crmn-0.0.20/crmn/man/sFit-method.Rd |only
crmn-0.0.20/crmn/man/show.Rd | 13 +++-
crmn-0.0.20/crmn/man/show_nfit.Rd | 11 ++-
crmn-0.0.20/crmn/man/standards.Rd | 20 +++---
crmn-0.0.20/crmn/man/standardsFit.Rd | 63 ++++++++++-----------
crmn-0.0.20/crmn/man/standardsPred.Rd | 43 ++++++--------
crmn-0.0.20/crmn/man/standards_eset.Rd | 20 +++---
crmn-0.0.20/crmn/man/standards_other.Rd | 17 ++---
crmn-0.0.20/crmn/man/weightnorm.Rd | 31 +++++-----
45 files changed, 359 insertions(+), 336 deletions(-)
Title: Bayesian Projection of Life Expectancy
Diff between bayesLife versions 2.1-2 dated 2014-11-13 and 2.1-3 dated 2014-11-20
Description: Making probabilistic projections of life expectancy for all countries of the world, using a Bayesian hierarchical model.
Author: Hana Sevcikova, Adrian Raftery; original WinBugs code written by Jennifer Chunn
Maintainer: Hana Sevcikova
ChangeLog | 10 +++
DESCRIPTION | 8 +--
MD5 | 18 +++----
R/projection_fcns.R | 102 +++++++++++++++++++++-------------------
R/run_mcmc.R | 21 ++++----
inst/extdata/my_e0_template.txt | 2
man/bayesLife-package.Rd | 4 -
man/convert.trajectories.Rd | 4 -
tests/run_tests.R | 3 -
tests/test_functions.R | 88 ++++++++++++++++++++++++++++++++++
10 files changed, 184 insertions(+), 76 deletions(-)