Title: Multivariate Process Capability Indices (MPCI)
Diff between MPCI versions 1.0.3 dated 2012-02-17 and 1.0.4 dated 2012-04-25
Description: MPCI package performs the followings Multivariate Process
Capability Indices: Shahriari et al. (1995) Multivariate
Capability Vector, Taam et al. (1993) Multivariate Capability
Index (MCpm) and the followings based on Principal Component
Analysis (PCA):Wang and Chen (1998), Xekalaki and Perakis
(2002) and Wang (2005). Moreover, include two datasets.
Author: Edgar Santos-Fernandez, Michele Scagliarini.
Maintainer: Edgar Santos-Fernandez
DESCRIPTION | 12 ++++++------
MD5 | 7 ++++---
inst |only
man/MPCI-package.Rd | 10 ++++++----
man/mpci.Rd | 4 +++-
5 files changed, 19 insertions(+), 14 deletions(-)
Title: statconn: provides portable C-style interface to R
(StatConnector)
Diff between rscproxy versions 1.3-1 dated 2009-04-15 and 2.0-1 dated 2012-04-25
Description: rscproxy library provides an interface to R used by third
party applications, most notable, but not limited to,
statconnDCOM, ROOo and other systems.
Author: Thomas Baier
Maintainer: Thomas Baier
DESCRIPTION | 8
MD5 |only
inst/include/SC_proxy.h | 45 +++-
inst/include/SC_system.h | 10 -
inst/include/bdx.h | 7
src/bdx_SEXP.c | 449 +++++++++++++++++++++++++++++++++++++----------
src/bdx_util.c | 6
src/rproxy.c | 8
src/rproxy_dev.c | 4
9 files changed, 421 insertions(+), 116 deletions(-)
Title: Survival analysis, including penalised likelihood.
Diff between survival versions 2.36-13 dated 2012-04-24 and 2.36-14 dated 2012-04-25
Description: survival analysis: descriptive statistics, two-sample
tests, parametric accelerated failure models, Cox model.
Delayed entry (truncation) allowed for all models; interval
censoring for parametric models. Case-cohort designs.
Author: Terry Therneau, original Splus->R port by Thomas Lumley
Maintainer: Terry Therneau
DESCRIPTION | 6 +++---
MD5 | 20 ++++++++++----------
R/coxph.R | 8 +++++---
data/kidney.rda |binary
data/ovarian.rda |binary
data/rats.rda |binary
inst/NEWS.Rd | 7 +++++++
inst/doc/timedep.pdf |binary
inst/doc/validate.pdf |binary
tests/cancer.R | 8 ++++++++
tests/cancer.Rout.save | 16 ++++++++++++++--
11 files changed, 47 insertions(+), 18 deletions(-)
Title: Local Regression, Likelihood and Density Estimation.
Diff between locfit versions 1.5-7 dated 2012-03-25 and 1.5-8 dated 2012-04-25
Description: Local regression, likelihood and density estimation.
Author: Catherine Loader
Maintainer: Andy Liaw
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
NAMESPACE | 2 +-
NEWS | 5 +++++
R/locfit.r | 20 +++++++++++++++++---
5 files changed, 31 insertions(+), 12 deletions(-)
Title: provides objects and tools to manipulate irregular unhomogeneous
time data and subtime data.
Diff between timetools versions 1.1-0 dated 2012-02-06 and 1.1-2 dated 2012-04-25
Description: This package is intended to manipulate irregular time
series such as subtime series, series based on time intervals,
etc. This package uses only POSIX* format. Main things defined
in this package are the classes POSIXcti, POSIXctp,
TimeIntervalDataFrame, TimeInstantDataFrame, SubtimeDataFrame,
methods to switch from one class to another and the
changeSupport method for TimeIntervalDataFrame.
Author: Vladislav Navel
Maintainer: Vladislav Navel
DESCRIPTION | 8 +-
MD5 | 47 ++++++------
NAMESPACE | 3
R/00generic.R | 11 +-
R/SubtimeDataFrame.R | 13 +++
R/TimeInstantDataFrame.R | 28 ++++++-
R/TimeIntervalDataFrame.R | 27 ++++++-
R/decompose.R |only
R/posixct.R | 2
R/posixctp.R | 4 -
R/subtime.R | 36 +++++----
R/tt_plot.R | 26 ++++--
README |only
TODO |only
man/RegularTimeInstantDataFrame.Rd | 3
man/RegularTimeIntervalDataFrame.Rd | 4 -
man/SubtimeDataFrame-class.Rd | 8 +-
man/TimeInstantDataFrame-class.Rd | 8 +-
man/TimeIntervalDataFrame-class.Rd | 8 +-
man/as.SubtimeDataFrame.Rd | 11 ++
man/changeSupport.Rd | 4 -
man/posix.properties.Rd | 6 +
man/subtime.Rd | 26 ++++--
man/timetools-package.Rd | 9 +-
src/Makevars | 2
timetools-Ex.R | 136 +++++++++++++++++++++++++++---------
26 files changed, 296 insertions(+), 134 deletions(-)
Title: Qualitative Comparative Analysis
Diff between QCA versions 1.0-2 dated 2012-04-22 and 1.0-3 dated 2012-04-25
Description: Performs the Quine-McCluskey algorithm for Qualitative
Comparative Analysis, for all versions: csQCA, mvQCA and fsQCA.
Author: Adrian Dusa
Maintainer: Adrian Dusa
DESCRIPTION | 8 ++++----
MD5 | 22 +++++++++++-----------
R/eqmcc.R | 5 ++++-
R/findSupersets.R | 12 ++++++------
R/is.print.R | 21 +++++++++------------
R/pof.R | 7 ++++---
R/superSubset.R | 10 +++-------
inst/CHANGES | 3 +++
man/QCA.package.Rd | 4 ++--
man/eqmcc.Rd | 13 +++++++------
man/findSupersets.Rd | 4 ++--
man/superSubset.Rd | 3 ++-
12 files changed, 57 insertions(+), 55 deletions(-)
Title: Classification trees for ordinal responses
Diff between rpartScore versions 0.1.1 dated 2012-03-31 and 1.0-0 dated 2012-04-25
Description: This package contains functions that allow to build
classification trees for ordinal responses within the CART
framework. The trees are grown using the Generalized Gini
impurity function, where the misclassification costs are given
by the absolute or squared differences in scores assigned to
the categories of the response. Pruning is based on the total
misclassification rate or on the total misclassification cost.
Author: Giuliano Galimberti, Gabriele Soffritti, Matteo Di Maso
Maintainer: Giuliano Galimberti
DESCRIPTION | 8 ++++----
MD5 | 21 +++++++++++----------
inst/CITATION |only
inst/doc/rpartScore.Rnw | 2 +-
inst/doc/rpartScore.pdf |binary
man/evalMedian.Rd | 5 +++--
man/evalMode.Rd | 5 +++--
man/initScore.Rd | 5 +++--
man/rpartScore-package.Rd | 9 +++++----
man/rpartScore.Rd | 5 +++--
man/splitAbs.Rd | 5 +++--
man/splitQuad.Rd | 5 +++--
12 files changed, 39 insertions(+), 31 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2009-05-29 0.1-2
2009-05-18 0.1-1
Title: Parallel Computing Toolset for Genome-Wide Association Studies
(GWAS)
Diff between SNPRelate versions 0.9.4 dated 2012-03-17 and 0.9.5 dated 2012-04-25
Description: A high-performance computing toolset for relatedness and
principal component analysis in GWAS
Author: Xiuwen Zheng
Maintainer: Xiuwen Zheng
DESCRIPTION | 8 -
MD5 | 48 +++---
R/main.r | 319 +++++++++++++++++++++++++++++++++++++-----
man/SNPRelate-package.Rd | 17 +-
man/snpgdsBED2GDS.Rd | 7
man/snpgdsCombineGeno.Rd | 2
man/snpgdsCreateGeno.Rd | 9 +
man/snpgdsGetGeno.Rd | 1
man/snpgdsIBDMLE.Rd | 36 +++-
man/snpgdsIBDMLELogLik.Rd | 14 -
man/snpgdsIBDMoM.Rd | 36 +++-
man/snpgdsIBDSelection.Rd | 2
man/snpgdsIBSNum.Rd | 4
man/snpgdsLDpruning.Rd | 4
man/snpgdsPCA.Rd | 4
man/snpgdsPCASNPLoading.Rd | 2
man/snpgdsPairIBD.Rd |only
man/snpgdsPairIBDMLELogLik.Rd |only
src/dGWASMath.h | 4
src/dGenGWAS.cpp | 85 ++++++++++-
src/dGenGWAS.h | 40 +++--
src/genIBD.cpp | 179 ++++++++++++++++-------
src/genIBS.cpp | 2
src/genLD.cpp | 2
src/genPCA.cpp | 2
src/main.cpp | 126 +++++++++++++++-
26 files changed, 759 insertions(+), 194 deletions(-)
Title: For mapping global data : rworldmap
Diff between rworldmap versions 0.1300 dated 2012-03-07 and 0.1310 dated 2012-04-25
Description: Enables mapping of country level and gridded user
datasets.
Author: Andy South, with contributions from Joe Scutt-Phillips, Barry
Rowlingson, Roger Bivand & Pru Foster
Maintainer: Andy South
rworldmap-0.1300/rworldmap/inst/doc/cefasLogo.jpg |only
rworldmap-0.1300/rworldmap/inst/doc/nercLogo.jpg |only
rworldmap-0.1300/rworldmap/inst/doc/questLogo.png |only
rworldmap-0.1300/rworldmap/inst/doc/rworldmap.Rnw |only
rworldmap-0.1310/rworldmap/DESCRIPTION | 12 +-
rworldmap-0.1310/rworldmap/MD5 | 27 ++--
rworldmap-0.1310/rworldmap/R/barplotCountryData.r |only
rworldmap-0.1310/rworldmap/R/mapDevice.r | 2
rworldmap-0.1310/rworldmap/R/zzz.r | 5
rworldmap-0.1310/rworldmap/inst/doc/ChangeLog.txt |only
rworldmap-0.1310/rworldmap/inst/doc/rworldmap.pdf |binary
rworldmap-0.1310/rworldmap/inst/doc/rworldmap.rnw |only
rworldmap-0.1310/rworldmap/inst/doc/rworldmapFAQ.Rnw | 113 +++++++++++--------
rworldmap-0.1310/rworldmap/inst/doc/rworldmapFAQ.pdf |binary
rworldmap-0.1310/rworldmap/man/barplotCountryData.rd |only
rworldmap-0.1310/rworldmap/man/rworldmap-package.Rd | 7 -
rworldmap-0.1310/rworldmap/vignettes |only
17 files changed, 100 insertions(+), 66 deletions(-)
Title: Simple Network of Workstations
Diff between snow versions 0.3-8 dated 2011-11-18 and 0.3-9 dated 2012-04-25
Description: Support for simple parallel computing in R.
Author: Luke Tierney, A. J. Rossini, Na Li, H. Sevcikova
Maintainer: Luke Tierney
DESCRIPTION | 6 +++---
MD5 | 4 ++--
man/snow-startstop.Rd | 8 ++++----
3 files changed, 9 insertions(+), 9 deletions(-)
Title: Manage and manipulate large collections of R objects stored as
tape-like files
Diff between rtape versions 1.2 dated 2012-03-27 and 2.0 dated 2012-04-25
Description: Storing huge data in RData format causes problems because
of the nessesity to load the whole file to the memory in order
to access and manipulate objects inside such file; rtape is a
simple solution to this problem. The package contains serveral
wrappers of R built-in serialize/unserialize mechanism allowing
user to quickly append objects to a tape-like file and later
iterate over them requiring only one copy of each stored object
to reside in memory a time.
Author: Miron B. Kursa
Maintainer: Miron B. Kursa
rtape-1.2/rtape/man/rtape-sub-apply.Rd |only
rtape-2.0/rtape/DESCRIPTION | 7 ++++---
rtape-2.0/rtape/MD5 | 20 ++++++++++----------
rtape-2.0/rtape/R/rtapeFilter.R | 29 ++++++++++++++++++++++-------
rtape-2.0/rtape/R/rtapeLapply.R | 1 +
rtape-2.0/rtape/R/rtapeRerecord.R | 30 +++++++++++++++++++++---------
rtape-2.0/rtape/R/rtape_apply.R | 1 +
rtape-2.0/rtape/inst/NEWS | 8 ++++++++
rtape-2.0/rtape/man/rtapeFilter.Rd | 22 ++++++++++++++++++----
rtape-2.0/rtape/man/rtapeLapply.Rd | 1 +
rtape-2.0/rtape/man/rtapeRerecord.Rd | 21 +++++++++++++++------
rtape-2.0/rtape/man/rtape_apply.Rd |only
12 files changed, 101 insertions(+), 39 deletions(-)
Title: Hypothesis Testing and Power Calculations for Comparing
Metagenomic Samples from HMP
Diff between HMP versions 1.0 dated 2011-11-04 and 1.1 dated 2012-04-25
Description: This package provides several functions to perform formal
hypothesis testing, and power and sample size calculations for
human microbiome experiments. Dirichlet-Multinomial
distribution is proposed for modeling the species abundance
distributions of human microbiota (ranked bacterial taxa
counts).
Author: Patricio S. La Rosa, Elena Deych, Berkley Shands, William D.
Shannon
Maintainer: Berkley Shands
DESCRIPTION | 21 +++++++----
MD5 | 79 ++++++++++++++++++++++----------------------
NAMESPACE |only
R/Barchart.data.R | 10 ++---
R/C.alpha.multinomial.R | 17 +++++----
R/DM.MoM.R | 12 +++---
R/Data.filter.R | 10 ++---
R/Dirichlet.multinomial.R | 6 +--
R/MC.Xdc.statistics.R | 12 +++---
R/MC.Xmc.statistics.R | 24 ++++++-------
R/MC.Xmcupo.statistics.R | 24 ++++++-------
R/MC.Xoc.statistics.R | 12 +++---
R/MC.Xsc.statistics.R | 10 ++---
R/MC.ZT.statistics.R | 10 ++---
R/Multinomial.R | 6 +--
R/T.statistics.R | 2 -
R/Xdc.sevsample.R | 10 ++---
R/Xdc.statistics.Hnull.Ha.R | 8 ++--
R/Xdc.statistics.MoM.R | 15 +++++---
R/Xdc.statistics.R | 3 +
R/Xmc.sevsample.R | 27 +++++++--------
R/Xmc.statistics.Hnull.ha.R | 24 ++++++-------
R/Xmc.statistics.R | 22 ++++++------
R/Xmcupo.sevsample.R | 24 ++++++-------
R/Xmcupo.statistics.H.R | 24 ++++++-------
R/Xmcupo.statistics.R | 22 ++++++------
R/Xoc.sevsample.R | 12 +++---
R/Xoc.statistics.H.R | 12 +++---
R/Xoc.statistics.MoM.R | 21 ++++++-----
R/Xoc.statistics.R | 14 +++----
R/Xsc.onesample.R | 16 ++++----
R/Xsc.statistics.Hnull.Ha.R | 8 ++--
R/Xsc.statistics.R | 4 +-
R/Z.statistics.R | 12 +++---
R/ZT.statistics.R | 6 +--
R/loglikDM.R | 8 ++--
man/Barchart.data.Rd | 8 ++--
man/DM.MoM.Rd | 2 -
man/Data.filter.Rd | 2 -
man/HMP-package.Rd | 4 +-
man/MC.Xmcupo.statistics.Rd | 4 +-
41 files changed, 290 insertions(+), 277 deletions(-)
Title: Regularized Categorial Effects/Categorial Effect Modifiers in
GLMs
Diff between gvcm.cat versions 1.2 dated 2012-03-30 and 1.3 dated 2012-04-25
Description: The function fits generalized linear models with
categorial effects and categorial effect modifiers. The model
is specified by giving a symbolic description of the linear
predictor and a description of the error distribution.
Estimation employs regularization and model selection
strategies to fuse and/or select a covariate's categories.
These strategies are either a penalty combining the fused and
the pure Lasso or a forward selection strategy employing
AIC/BIC.
Author: Margret-Ruth Oelker
Maintainer: Margret-Ruth Oelker
gvcm.cat-1.2/gvcm.cat/R/reduceBeta.R |only
gvcm.cat-1.2/gvcm.cat/R/reduceX.R |only
gvcm.cat-1.2/gvcm.cat/R/reductionX.R |only
gvcm.cat-1.3/gvcm.cat/DESCRIPTION | 8 -
gvcm.cat-1.3/gvcm.cat/MD5 | 59 ++++----
gvcm.cat-1.3/gvcm.cat/R/a.coefs.R | 17 +-
gvcm.cat-1.3/gvcm.cat/R/abc.R | 118 ++++++++++-------
gvcm.cat-1.3/gvcm.cat/R/abc.a.coefs.R | 30 +++-
gvcm.cat-1.3/gvcm.cat/R/abc.optimierung.R | 30 +++-
gvcm.cat-1.3/gvcm.cat/R/cat_control.R | 87 +++++++------
gvcm.cat-1.3/gvcm.cat/R/check.simulation.R | 5
gvcm.cat-1.3/gvcm.cat/R/cv.lambda.phi.R | 52 +++++--
gvcm.cat-1.3/gvcm.cat/R/cv.vectors.R | 27 +++-
gvcm.cat-1.3/gvcm.cat/R/design.R |only
gvcm.cat-1.3/gvcm.cat/R/first.derivative.R | 8 -
gvcm.cat-1.3/gvcm.cat/R/gvcm.cat.default.R | 60 +++------
gvcm.cat-1.3/gvcm.cat/R/index.R | 164 +++++++++++++------------
gvcm.cat-1.3/gvcm.cat/R/lambda.max.R | 37 ++---
gvcm.cat-1.3/gvcm.cat/R/optimierung.R | 63 +++++----
gvcm.cat-1.3/gvcm.cat/R/path.matrix.R | 6
gvcm.cat-1.3/gvcm.cat/R/pest.R | 127 ++++++++++---------
gvcm.cat-1.3/gvcm.cat/R/plot.gvcm.cat.R | 19 +-
gvcm.cat-1.3/gvcm.cat/R/predict.gvcm.cat.R | 24 ---
gvcm.cat-1.3/gvcm.cat/R/reduce.R |only
gvcm.cat-1.3/gvcm.cat/R/simulation.R | 32 ++--
gvcm.cat-1.3/gvcm.cat/R/summary.gvcm.cat.R | 23 ++-
gvcm.cat-1.3/gvcm.cat/R/v.R | 2
gvcm.cat-1.3/gvcm.cat/R/weight.function.R | 59 +++++---
gvcm.cat-1.3/gvcm.cat/man/cat_control.Rd | 26 +--
gvcm.cat-1.3/gvcm.cat/man/gvcm.cat-internal.Rd | 4
gvcm.cat-1.3/gvcm.cat/man/gvcm.cat.Rd | 25 +--
gvcm.cat-1.3/gvcm.cat/man/index.Rd | 24 ++-
gvcm.cat-1.3/gvcm.cat/man/plot.gvcm.cat.Rd | 4
33 files changed, 624 insertions(+), 516 deletions(-)