Title: Multivariate and Propensity Score Matching with Balance
Optimization
Diff between Matching versions 4.8-2 dated 2013-04-27 and 4.8-3.1 dated 2013-06-28
Description: Provides functions for multivariate and propensity score
matching and for finding optimal balance based on a genetic
search algorithm. A variety of univariate and multivariate
metrics to determine if balance has been obtained are also
provided.
Author: Jasjeet Singh Sekhon
Maintainer: Jasjeet Singh Sekhon
ChangeLog | 10
DESCRIPTION | 12
MD5 | 34 -
R/GenMatching.R | 18
data/lalonde.rda |binary
man/GenMatch.Rd | 12
man/Match.Rd | 10
man/MatchBalance.Rd | 8
man/ks.boot.Rd | 9
man/qqstats.Rd | 7
tests/AbadieImbens.R | 2
tests/AbadieImbens.Rout.save | 28 -
tests/DehejiaWahba.R | 2
tests/DehejiaWahba.Rout.save | 28 -
tests/GenMatch.R | 5
tests/GenMatch.Rout.save | 1153 ++++++++++++++++++++++++++-----------------
tests/Matchby.R | 2
tests/Matchby.Rout.save | 28 -
18 files changed, 793 insertions(+), 575 deletions(-)
Title: Greg's Miscellaneous Functions
Diff between gregmisc versions 2.1.2 dated 2011-09-02 and 2.1.5 dated 2013-06-28
Description: Description: The former gregmisc bundle is a repository
for a variety of useful functions. The gregmisc package has
been split into a set of more focused packages: gdata, gmodels,
gplots, gtools. The purpose of this 'new' gregmisc is to
provide an easy way to access the original combined
functionality. To this end, it simply depends on all of the
new packages so that these will installed/loaded when this
package is installed/loaded.
Author: Gregory R. Warnes.
Maintainer: Gregory R. Warnes
gregmisc-2.1.2/gregmisc/R/First.R |only
gregmisc-2.1.2/gregmisc/man |only
gregmisc-2.1.5/gregmisc/.Rinstignore |only
gregmisc-2.1.5/gregmisc/ChangeLog |only
gregmisc-2.1.5/gregmisc/DESCRIPTION | 23 ++++++++++++-----------
gregmisc-2.1.5/gregmisc/MD5 | 12 ++++++++----
gregmisc-2.1.5/gregmisc/NAMESPACE |only
gregmisc-2.1.5/gregmisc/NEWS | 7 ++++++-
gregmisc-2.1.5/gregmisc/R/onAttach.R |only
gregmisc-2.1.5/gregmisc/inst/ChangeLog |only
gregmisc-2.1.5/gregmisc/inst/NEWS |only
gregmisc-2.1.5/gregmisc/inst/doc/gregmisc.pdf |only
12 files changed, 26 insertions(+), 16 deletions(-)
Title: Robust gridding and quantifying of pinned genetic screens
Diff between gitter versions 1.0 dated 2013-06-14 and 1.0.1 dated 2013-06-28
Description: gitter is a image analysis package for R. Its primary goal
is to allow users to robustly and quickly grid and quantify
biological images of pinned colonies. It includes several image
pre-processing techniques, such as autorotation of plates,
noise removal, contrast adjustment and image resizing.
Author: Omar Wagih, Leopold Parts
Maintainer: Omar Wagih
CHANGES |only
DESCRIPTION | 8 +-
MD5 | 19 +++---
R/Help.R | 90 ++++++++++++++++++------------
R/Main.R | 77 ++++++++++++++++---------
R/Peaks.R | 128 +++++++++++++++++++++++++++++++------------
build/BUILD.R | 6 +-
inst/extdata/sample.jpg |binary
inst/extdata/sample_dead.jpg |binary
man/gitter.Rd | 24 ++++----
man/gitter.batch.Rd | 7 --
11 files changed, 228 insertions(+), 131 deletions(-)
Title: Calculate agreement
Diff between agrmt versions 1.30 dated 2013-03-13 and 1.31 dated 2013-06-28
Description: This package calculates agreement or consensus in ordered
rating scales. It implements van der Eijk's (2001) measure of
agreement A, which can be used to describe agreement,
consensus, or polarization among respondents. It also
implements measures of consensus (dispersion) by Leik, Tatsle
and Wierman, Blair and Lacy, Kvalseth, and Berry and Mielke.
Furthermore, an implementation of Galtungs AJUS-system is
provided to classify distributions, as well as a function to
identify the position of multiple modes.
Author: Didier Ruedin
Maintainer: Didier Ruedin
DESCRIPTION | 19 ++++++++++---------
MD5 | 15 +++++++++++++--
R/BerryMielke.R |only
R/BlairLacy.R |only
R/Kvalseth.R |only
R/dsquared.R |only
R/lsquared.R |only
inst/doc/agrmt.R |only
man/BerryMielke.Rd |only
man/BlairLacy.Rd |only
man/Kvalseth.Rd |only
man/agrmt-package.Rd | 2 +-
man/dsquared.Rd |only
man/lsquared.Rd |only
14 files changed, 24 insertions(+), 12 deletions(-)
Title: Various R programming tools for plotting data
Diff between gplots versions 2.11.0.1 dated 2013-04-02 and 2.11.3 dated 2013-06-28
Description: Various R programming tools for plotting data
Author: Gregory R. Warnes, Ben Bolker, Lodewijk Bonebakker, Robert
Gentleman, Wolfgang Huber Andy Liaw, Thomas Lumley, Martin
Maechler, Arni Magnusson, Steffen Moeller, Marc Schwartz, Bill
Venables
Maintainer: Gregory R. Warnes
ChangeLog | 950 +++++++++----------------------------------
DESCRIPTION | 22
MD5 | 36 -
NEWS | 73 ++-
R/barplot2.R | 108 +++-
R/heatmap.2.R | 10
R/plot.venn.R | 109 +++-
R/sinkplot.R | 26 -
R/venn.R | 23 -
inst/ChangeLog | 950 +++++++++----------------------------------
inst/NEWS | 73 ++-
inst/doc/BalloonPlot.pdf |binary
inst/doc/venn.R |only
inst/doc/venn.Rnw |only
inst/doc/venn.pdf |only
man/barplot2.Rd | 11
man/plotmeans.Rd | 6
man/sinkplot.Rd | 6
tests/heatmap2Test.R | 6
tests/heatmap2Test.Rout.save | 12
vignettes |only
21 files changed, 759 insertions(+), 1662 deletions(-)
Title: The Fisher-EM algorithm
Diff between FisherEM versions 1.3.2 dated 2013-02-21 and 1.4 dated 2013-06-28
Description: The FisherEM package provides an efficient algorithm for
the unsupervised classification of high-dimensional data. This
FisherEM algorithm models and clusters the data in a
discriminative and low-dimensional latent subspace. It also
provides a low-dimensional representation of the clustered
data. A sparse version of Fisher-EM algorithm is also provided.
Author: Charles Bouveyron and Camille Brunet
Maintainer: Camille Brunet
FisherEM-1.3.2/FisherEM/R/FisherEM-internal.R |only
FisherEM-1.3.2/FisherEM/R/criteria.R |only
FisherEM-1.3.2/FisherEM/R/estep.R |only
FisherEM-1.3.2/FisherEM/R/evalEM.R |only
FisherEM-1.3.2/FisherEM/R/fem_main.R |only
FisherEM-1.3.2/FisherEM/R/fem_sparse.R |only
FisherEM-1.3.2/FisherEM/R/mstep.R |only
FisherEM-1.3.2/FisherEM/man/evalEM.Rd |only
FisherEM-1.4/FisherEM/DESCRIPTION | 12 +-
FisherEM-1.4/FisherEM/MD5 | 41 ++++-----
FisherEM-1.4/FisherEM/NAMESPACE | 5 -
FisherEM-1.4/FisherEM/R/fem.R | 109 ++++++++++--------------
FisherEM-1.4/FisherEM/R/fem.ari.R |only
FisherEM-1.4/FisherEM/R/fem.criteria.R |only
FisherEM-1.4/FisherEM/R/fem.estep.R |only
FisherEM-1.4/FisherEM/R/fem.main.R |only
FisherEM-1.4/FisherEM/R/fem.mstep.R |only
FisherEM-1.4/FisherEM/R/fem.sparse.R |only
FisherEM-1.4/FisherEM/R/fstep.GramSc.R | 30 +++---
FisherEM-1.4/FisherEM/R/fstep.fisher.R | 3
FisherEM-1.4/FisherEM/R/fstep.qiao.R | 3
FisherEM-1.4/FisherEM/R/fstep.sparse.R | 4
FisherEM-1.4/FisherEM/R/plot.fem.R | 77 +++++++++++++----
FisherEM-1.4/FisherEM/R/sfem.R |only
FisherEM-1.4/FisherEM/R/summary.fem.R |only
FisherEM-1.4/FisherEM/demo/FisherEM.r | 101 +++++++++++-----------
FisherEM-1.4/FisherEM/man/fem.Rd | 116 ++++++++++----------------
FisherEM-1.4/FisherEM/man/fem.ari.Rd |only
FisherEM-1.4/FisherEM/man/plot.fem.Rd | 29 +++---
FisherEM-1.4/FisherEM/man/sfem.Rd |only
FisherEM-1.4/FisherEM/man/summary.fem.Rd |only
31 files changed, 270 insertions(+), 260 deletions(-)
Title: Automated caret feature selection
Diff between fscaret versions 0.8.5.1 dated 2013-06-17 and 0.8.5.2 dated 2013-06-28
Description: Automated feature selection using variety of models
provided by caret package
Author: Jakub Szlek
Maintainer: Jakub Szlek
DESCRIPTION | 12 +++---
MD5 | 17 ++++++---
R/impCalc.R | 87 +++++++++----------------------------------------
R/regVarImp.R | 4 +-
R/requiredPackages.R | 2 -
inst |only
man/fscaret-package.Rd | 6 +--
man/fscaret.Rd | 2 -
vignettes |only
9 files changed, 41 insertions(+), 89 deletions(-)
Title: Double log normal distribution functions
Diff between loglognorm versions 1.0.0 dated 2008-08-07 and 1.0.1 dated 2013-06-28
Description: r,d,p,q functions for the double log normal distribution
Author: Heike Trautmann, Detlef Steuer and Olaf Mersmann
Maintainer: Olaf Mersmann
DESCRIPTION | 19 ++++++++-----------
MD5 |only
2 files changed, 8 insertions(+), 11 deletions(-)
Title: Functions and data for "Data Mining with R"
Diff between DMwR versions 0.3.1 dated 2013-03-22 and 0.4.0 dated 2013-06-28
Description: This package includes functions and data accompanying the
book "Data Mining with R, learning with case studies" by Luis
Torgo, CRC Press 2010.
Author: Luis Torgo
Maintainer: Luis Torgo
DMwR-0.3.1/DMwR/inst/doc |only
DMwR-0.3.1/DMwR/man/standardWF.Rd |only
DMwR-0.3.1/DMwR/man/timeseriesWF.Rd |only
DMwR-0.4.0/DMwR/CHANGES | 7
DMwR-0.4.0/DMwR/DESCRIPTION | 8
DMwR-0.4.0/DMwR/MD5 | 33 +-
DMwR-0.4.0/DMwR/NAMESPACE | 4
DMwR-0.4.0/DMwR/R/DMwR-defunct.R | 43 +--
DMwR-0.4.0/DMwR/R/classes.R | 113 +++------
DMwR-0.4.0/DMwR/R/experiments.R | 318 ++++++++++----------------
DMwR-0.4.0/DMwR/inst/CITATION | 2
DMwR-0.4.0/DMwR/man/DMwR-defunct.Rd | 14 -
DMwR-0.4.0/DMwR/man/bootSettings-class.Rd | 6
DMwR-0.4.0/DMwR/man/cvSettings-class.Rd | 6
DMwR-0.4.0/DMwR/man/experimentalComparison.Rd | 6
DMwR-0.4.0/DMwR/man/growingWindowTest.Rd |only
DMwR-0.4.0/DMwR/man/hldSettings-class.Rd | 6
DMwR-0.4.0/DMwR/man/mcSettings-class.Rd | 6
DMwR-0.4.0/DMwR/man/monteCarlo.Rd | 66 +++--
DMwR-0.4.0/DMwR/man/slidingWindowTest.Rd |only
20 files changed, 269 insertions(+), 369 deletions(-)
Title: R version of GENetic Optimization Using Derivatives
Diff between rgenoud versions 5.7-9 dated 2013-05-07 and 5.7-12 dated 2013-06-28
Description: A genetic algorithm plus derivative optimizer
Author: Walter R. Mebane, Jr.
Maintainer: Jasjeet Singh Sekhon
rgenoud-5.7-12/rgenoud/ChangeLog | 28
rgenoud-5.7-12/rgenoud/DESCRIPTION | 11
rgenoud-5.7-12/rgenoud/MD5 | 23
rgenoud-5.7-12/rgenoud/R/rgenoud.R | 70 --
rgenoud-5.7-12/rgenoud/inst/doc/rgenoud.pdf |binary
rgenoud-5.7-12/rgenoud/man/genoud.Rd | 23
rgenoud-5.7-12/rgenoud/src/evaluate.cpp | 16
rgenoud-5.7-12/rgenoud/tests/tests.R | 20
rgenoud-5.7-12/rgenoud/tests/tests.Rout.save | 757 +--------------------------
rgenoud-5.7-12/rgenoud/vignettes |only
rgenoud-5.7-9/rgenoud/inst/doc/Figures |only
rgenoud-5.7-9/rgenoud/inst/doc/rgenoud.bib |only
12 files changed, 131 insertions(+), 817 deletions(-)
Title: 2d Rain Use Efficience model
Diff between r2dRue versions 1.0.3 dated 2011-04-26 and 1.0.4 dated 2013-06-28
Description: 2dRUE is a methodology to make a diagnostic of land
condition in a large territory during a given time period. The
following projects have funded this package: DeSurvey IP (EC
FP6 Integrated Project contract No. 003950), DesertWatch (ESA
DUE contract No. 18487/04/I-LG) and MesoTopos (Junta de
Andalucia PE ref. RNM-4023).
Author: Gabriel del Barrio, Juan Puigdefabregas, Maria E. Sanjuan &
Alberto Ruiz
Maintainer: Alberto Ruiz Moreno
r2dRue-1.0.3/r2dRue/.project |only
r2dRue-1.0.3/r2dRue/inst |only
r2dRue-1.0.4/r2dRue/DESCRIPTION | 16 +++++---
r2dRue-1.0.4/r2dRue/MD5 |only
r2dRue-1.0.4/r2dRue/R/etp.R | 57 ------------------------------
r2dRue-1.0.4/r2dRue/R/rgf.R | 10 ++++-
r2dRue-1.0.4/r2dRue/R/solarRadiation.R | 13 +++++-
r2dRue-1.0.4/r2dRue/man/r2dRplot.Rd | 3 +
r2dRue-1.0.4/r2dRue/man/r2dRue-package.Rd | 6 +--
r2dRue-1.0.4/r2dRue/man/rasterStack.Rd | 3 +
10 files changed, 36 insertions(+), 72 deletions(-)
Title: GUI for biodiversity, suitability and community ecology analysis
Diff between BiodiversityR versions 2.3 dated 2013-04-11 and 2.3-6 dated 2013-06-28
Description: This package provides a GUI (Graphical User Interface, via
the R-Commander) and some utility functions (often based on the
vegan package) for statistical analysis of biodiversity and
ecological communities, including species accumulation curves,
diversity indices, Renyi profiles, GLMs for analysis of species
abundance and presence-absence, distance matrices, Mantel
tests, and cluster, constrained and unconstrained ordination
analysis. A book on biodiversity and community ecology analysis
is available for free download from the website. In 2012,
methods for (ensemble) suitability modelling and mapping were
expanded in the package.
Author: Roeland Kindt
Maintainer: Roeland Kindt
BiodiversityR-2.3-6/BiodiversityR/DESCRIPTION | 8
BiodiversityR-2.3-6/BiodiversityR/MD5 | 53
BiodiversityR-2.3-6/BiodiversityR/NAMESPACE | 2
BiodiversityR-2.3-6/BiodiversityR/R/check.datasets.R | 39
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.batch.R | 271 +
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.drop1.R | 465 +-
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.formulae.R | 2
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.raster.R | 1789 +++++++----
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.strategy.R |only
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.test.R | 1308 +++++---
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.test.gbm.R | 187 -
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.test.nnet.R | 200 -
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.test.splits.R | 506 ++-
BiodiversityR-2.3-6/BiodiversityR/R/ensemble.weights.R | 21
BiodiversityR-2.3-6/BiodiversityR/R/evaluation.strip.data.R | 5
BiodiversityR-2.3-6/BiodiversityR/R/evaluation.strip.plot.R | 21
BiodiversityR-2.3-6/BiodiversityR/R/ordicoeno.R | 40
BiodiversityR-2.3-6/BiodiversityR/R/ordisymbol.R | 10
BiodiversityR-2.3-6/BiodiversityR/inst/etc/BiodiversityGUI.R | 22
BiodiversityR-2.3-6/BiodiversityR/man/add.spec.scores.Rd | 3
BiodiversityR-2.3-6/BiodiversityR/man/caprescale.Rd | 3
BiodiversityR-2.3-6/BiodiversityR/man/ensemble.Rd | 331 +-
BiodiversityR-2.3-6/BiodiversityR/man/ensemble.raster.Rd | 239 +
BiodiversityR-2.3-6/BiodiversityR/man/evaluation.strip.Rd | 13
BiodiversityR-2.3-6/BiodiversityR/man/ordicoeno.Rd | 7
BiodiversityR-2.3-6/BiodiversityR/man/ordisymbol.Rd | 20
BiodiversityR-2.3-6/BiodiversityR/man/removeNAcomm.Rd | 23
BiodiversityR-2.3/BiodiversityR/R/evaluation.strip.newdata.R |only
BiodiversityR-2.3/BiodiversityR/R/evaluation.strip.plot2.R |only
29 files changed, 3844 insertions(+), 1744 deletions(-)
Title: Conditional Density Estimation Network Construction and
Evaluation
Diff between CaDENCE versions 1.2.0 dated 2013-06-27 and 1.2.1 dated 2013-06-28
Description: A probabilistic extension of the standard multi-layer
perceptron neural network
Author: Alex J. Cannon
Maintainer: Alex J. Cannon
DESCRIPTION | 6 +++---
MD5 | 8 ++++----
R/cadence.evaluate.R | 1 +
R/cadence.fit.R | 14 +++++++-------
man/cadence.fit.Rd | 2 +-
5 files changed, 16 insertions(+), 15 deletions(-)