Title: Classification and Regression Training
Diff between caret versions 5.15-052 dated 2013-01-17 and 5.15-61 dated 2013-02-12
Description: Misc functions for training and plotting classification
and regression models
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre
Williams, Chris Keefer, Allan Engelhardt and Tony Cooper
Maintainer: Max Kuhn
DESCRIPTION | 33 ++++++------
MD5 | 40 +++++++--------
NAMESPACE | 2
R/createModel.R | 26 ++++++---
R/lift.R | 49 +++++++++++++-----
R/maxDissim.R | 25 ---------
R/misc.R | 1
R/preProcess.R | 103 --------------------------------------
R/predict.train.R | 33 ------------
R/predictionFunction.R | 26 +++++++--
R/predictors.R | 4 +
R/probFunction.R | 42 ++++++++++-----
R/resamples.R | 130 -------------------------------------------------
R/selectByFilter.R | 52 -------------------
R/train.default.R | 35 ++++++++++++-
R/workflows.R | 15 +++--
inst/NEWS.Rd | 23 ++++++++
inst/doc/caret.Rnw | 2
inst/doc/caret.pdf |binary
man/lift.Rd | 10 ++-
vignettes/caret.Rnw | 2
21 files changed, 217 insertions(+), 436 deletions(-)
Title: Methods for Temporal Disaggregation and Interpolation of Time
Series
Diff between tempdisagg versions 0.13 dated 2012-04-16 and 0.21 dated 2013-02-12
Description: Temporal disaggregation methods are used to disaggregate
and interpolate a low frequency time series to a higher
frequency series. This can be done without additional
information or by exploiting the information contained in one
or more indicators. All disaggregation methods ensure that
either the sum, the average, the first or the last value of the
resulting high frequency series is consistent with the low
frequency series.
Author: Christoph Sax, Peter Steiner
Maintainer: Christoph Sax
DESCRIPTION | 10
MD5 | 27 +-
NAMESPACE | 4
R/ta.R | 25 +-
R/td.R | 203 +++++++++++--------
R/td.calc.R | 418 +++++++++++++++++++++------------------
R/td.output.R | 72 +++---
R/td.sub.R | 477 +++++++++++++++++++++------------------------
man/plot.td.Rd | 6
man/predict.td.Rd |only
man/summary.td.Rd | 14 -
man/swisspharma.Rd | 4
man/ta.Rd | 18 -
man/td.Rd | 143 ++++++-------
man/tempdisagg-internal.Rd |only
news.txt |only
16 files changed, 735 insertions(+), 686 deletions(-)
Title: OCI based Oracle database interface for R
Diff between ROracle versions 1.1-7 dated 2012-12-05 and 1.1-8 dated 2013-02-12
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 | 361 ++++++++++++++++++++++++++-------
MD5 | 32 +-
NEWS | 5
R/dbi.R | 11 -
R/oci.R | 7
configure | 18 -
configure.ac | 2
configure.win | 124 ++++++-----
inst/doc/man/en/OraConnection-class.Rd | 4
inst/doc/man/en/dbConnect-methods.Rd | 6
inst/doc/man/en/dbSendQuery-methods.Rd | 6
man/OraConnection-class.Rd | 4
man/dbConnect-methods.Rd | 6
man/dbSendQuery-methods.Rd | 6
src/Makevars.win | 4
src/rodbi.c | 10
17 files changed, 424 insertions(+), 190 deletions(-)
Title: Handling missing values with/in multivariate data analysis
(principal component methods)
Diff between missMDA versions 1.5 dated 2012-08-03 and 1.6 dated 2013-02-12
Description: Imputation of incomplete continuous or categorical
datasets; Missing values are imputed with a principal component
analysis (PCA), a multiple correspondence analysis (MCA) model
or a multiple factor analysis (MFA) model; Perform multiple
imputation with and in PCA
Author: Francois Husson, Julie Josse
Maintainer: Francois Husson
missMDA-1.5/missMDA/R/imputeAFDM.R |only
missMDA-1.5/missMDA/man/imputeAFDM.Rd |only
missMDA-1.6/missMDA/DESCRIPTION | 10 ++---
missMDA-1.6/missMDA/MD5 | 38 ++++++++++---------
missMDA-1.6/missMDA/NAMESPACE | 2 -
missMDA-1.6/missMDA/R/estim_ncpMCA.R | 43 ++++++++++++++++++----
missMDA-1.6/missMDA/R/estim_ncpPCA.R | 27 ++++++++++++--
missMDA-1.6/missMDA/R/imputeFAMD.R |only
missMDA-1.6/missMDA/R/imputeMCA.R | 3 +
missMDA-1.6/missMDA/R/imputeMFA.R | 22 ++++++-----
missMDA-1.6/missMDA/R/imputePCA.R | 7 +--
missMDA-1.6/missMDA/data/ozone.rda |only
missMDA-1.6/missMDA/man/MIPCA.Rd | 1
missMDA-1.6/missMDA/man/estim_ncpMCA.Rd | 14 ++++---
missMDA-1.6/missMDA/man/estim_ncpPCA.Rd | 10 +++--
missMDA-1.6/missMDA/man/imputeFAMD.Rd |only
missMDA-1.6/missMDA/man/imputeMCA.Rd | 13 +++---
missMDA-1.6/missMDA/man/imputeMFA.Rd | 10 ++---
missMDA-1.6/missMDA/man/imputePCA.Rd | 1
missMDA-1.6/missMDA/man/ozone.Rd |only
missMDA-1.6/missMDA/man/plot.MIPCA.Rd | 2 -
missMDA-1.6/missMDA/man/vnf.Rd | 2 -
missMDA-1.6/missMDA/missMDA-Ex.R | 61 +++++++++++++++++++++++++-------
23 files changed, 178 insertions(+), 88 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining with R
Diff between FactoMineR versions 1.21 dated 2013-01-14 and 1.23 dated 2013-02-12
Description: an R package for exploratory data analysis
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson
DESCRIPTION | 10 +-
FactoMineR-Ex.R | 4
MD5 | 54 ++++++-------
R/AFDM.R | 4
R/AovSum.r | 2
R/CA.R | 69 ++++++++++++++---
R/HCPC.R | 28 +++---
R/MCA.R | 9 +-
R/MFA.R | 67 ++++++++++------
R/PCA.R | 60 ++++++--------
R/catdes.r | 23 ++---
R/coord.ellipse.R | 2
R/plot.CA.R | 58 ++++++++++++--
R/plot.MCA.R | 4
R/plot.MFA.R | 59 +++++---------
R/plot.PCA.R | 6 -
R/plotellipses.r | 2
R/print.CA.R | 12 ++
R/tab.disjonctif.prop.R | 1
data/children.rda |binary
data/poison.rda |binary
data/poison.text.rda |binary
inst/doc/FactoMineR.pdf |binary
inst/doc/clustering_and_pricipal_component_methods.pdf |binary
man/CA.Rd | 11 +-
man/MCA.Rd | 8 -
man/catdes.Rd | 3
man/plot.CA.Rd | 17 ++--
28 files changed, 307 insertions(+), 206 deletions(-)
Title: Visualizing Generalized Canonical Discriminant and Canonical
Correlation Analysis
Diff between candisc versions 0.6-1 dated 2013-01-30 and 0.6-2 dated 2013-02-12
Description: This package includes functions for computing and
visualizing generalized canonical discriminant analyses and
canonical correlation analysis for a multivariate linear model.
Traditional canonical discriminant analysis is restricted to a
one-way MANOVA design and is equivalent to canonical
correlation analysis between a set of quantitative response
variables and a set of dummy variables coded from the factor
variable. The candisc package generalizes this to multi-way
MANOVA designs for all factors in a multivariate linear model,
computing canonical scores and vectors for each term. The
graphic functions provide low-rank (1D, 2D, 3D) visualizations
of terms in an mlm via the plot.candisc and heplot.candisc
methods.
Author: Michael Friendly and John Fox
Maintainer: Michael Friendly
DESCRIPTION | 12 +--
MD5 | 22 +++----
NEWS | 7 ++
R/cancor.R | 148 +++++++++++++++++++++++++++++++------------------
R/heplot.cancor.R | 13 ++--
man/cancor.Rd | 74 ++++++++++++++++++++----
man/candisc-package.Rd | 7 +-
man/heplot.cancor.Rd | 19 +++---
man/heplot.candisc.Rd | 6 +
man/plot.cancor.Rd | 32 ++++++++--
man/redundancy.Rd | 2
man/vectors.Rd | 24 +++----
12 files changed, 243 insertions(+), 123 deletions(-)
Title: Partitioning beta diversity into turnover and nestedness
components
Diff between betapart versions 1.1-2 dated 2012-05-03 and 1.2 dated 2013-02-12
Description: betapart allows computing pair-wise dissimilarities
(distance matrices) and multiple-site dissimilarities,
separating the turnover and nestedness components of
incidence-based dissimilarity (beta diversity) and the balanced
variation and abundance gradient components of abundance based
dissimilarity.
Author: Andres Baselga, David Orme and Sebastien Villeger
Maintainer: Andres Baselga
.Rinstignore |only
DESCRIPTION | 21 +++++++++++++--------
MD5 | 26 +++++++++++++++++---------
NAMESPACE | 12 ++++++------
R/bray-part.R |only
R/functional.beta.multi.R |only
R/functional.beta.pair.R |only
R/functional.betapart.core.R |only
data/bbsData.rda |binary
man/beta.multi.Rd | 2 +-
man/beta.pair.Rd | 2 +-
man/beta.sample.Rd | 2 +-
man/beta.temp.Rd | 2 +-
man/betapart-package.Rd | 19 ++++++++++++++++---
man/betapart.core.Rd | 2 +-
man/bray.part.Rd |only
man/functional.beta.multi.Rd |only
man/functional.beta.pair.Rd |only
man/functional.betapart.core.Rd |only
19 files changed, 57 insertions(+), 31 deletions(-)
Title: Convert country names and country codes
Diff between countrycode versions 0.10 dated 2013-01-20 and 0.11 dated 2013-02-12
Description: Standardize country names, convert them into one of seven
coding schemes, convert between coding schemes, and assign
region descriptors.
Author: Vincent Arel-Bundock
Maintainer: Vincent Arel-Bundock
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
NEWS | 8 ++++++++
data/countrycode_data.csv | 8 ++++----
data/countrycode_data.rda |binary
5 files changed, 20 insertions(+), 12 deletions(-)
Title: Regularized Categorial Effects/Categorial Effect
Modifiers/Continuous/Smooth effects in GLMs
Diff between gvcm.cat versions 1.4 dated 2012-06-14 and 1.5 dated 2013-02-12
Description: The function fits generalized structured regression models
with regularized categorical effects, categorical effect
modifiers, continuous effects and smooth effects.
Author: Margret-Ruth Oelker
Maintainer: Margret-Ruth Oelker
gvcm.cat-1.4/gvcm.cat/R/contr.effect.r |only
gvcm.cat-1.4/gvcm.cat/R/first.derivative.R |only
gvcm.cat-1.4/gvcm.cat/R/lambda.max.R |only
gvcm.cat-1.5/gvcm.cat/DESCRIPTION | 26 -
gvcm.cat-1.5/gvcm.cat/MD5 | 70 +-
gvcm.cat-1.5/gvcm.cat/NAMESPACE | 3
gvcm.cat-1.5/gvcm.cat/R/a.coefs.R | 456 ++++++++++++++++--
gvcm.cat-1.5/gvcm.cat/R/abc.R | 254 ++++------
gvcm.cat-1.5/gvcm.cat/R/abc.optimierung.R | 170 ++++---
gvcm.cat-1.5/gvcm.cat/R/bootstrap.R |only
gvcm.cat-1.5/gvcm.cat/R/cat_control.R | 98 +++-
gvcm.cat-1.5/gvcm.cat/R/contr.effect.R |only
gvcm.cat-1.5/gvcm.cat/R/cv.lambda.phi.R | 103 ++--
gvcm.cat-1.5/gvcm.cat/R/cv.vectors.R | 204 ++++++--
gvcm.cat-1.5/gvcm.cat/R/design.R | 18
gvcm.cat-1.5/gvcm.cat/R/grouped.R |only
gvcm.cat-1.5/gvcm.cat/R/grouped.fused.R |only
gvcm.cat-1.5/gvcm.cat/R/gvcm.cat.R | 6
gvcm.cat-1.5/gvcm.cat/R/gvcm.cat.default.R | 69 +-
gvcm.cat-1.5/gvcm.cat/R/index.R | 223 +++++++--
gvcm.cat-1.5/gvcm.cat/R/optimierung.R | 467 +++++++++++++++----
gvcm.cat-1.5/gvcm.cat/R/p.R | 30 +
gvcm.cat-1.5/gvcm.cat/R/path.matrix.R | 43 +
gvcm.cat-1.5/gvcm.cat/R/pest.R | 355 ++++++--------
gvcm.cat-1.5/gvcm.cat/R/plot.gvcm.cat.R | 603 ++++++++++++++++++++-----
gvcm.cat-1.5/gvcm.cat/R/predict.gvcm.cat.R | 72 +-
gvcm.cat-1.5/gvcm.cat/R/print.gvcm.cat.R | 2
gvcm.cat-1.5/gvcm.cat/R/pspline.R |only
gvcm.cat-1.5/gvcm.cat/R/reduce.R | 60 +-
gvcm.cat-1.5/gvcm.cat/R/simulation.R | 8
gvcm.cat-1.5/gvcm.cat/R/summary.gvcm.cat.R | 63 +-
gvcm.cat-1.5/gvcm.cat/R/v.R | 10
gvcm.cat-1.5/gvcm.cat/R/weight.function.R | 74 ---
gvcm.cat-1.5/gvcm.cat/inst/CITATION | 2
gvcm.cat-1.5/gvcm.cat/man/cat_control.Rd | 48 +
gvcm.cat-1.5/gvcm.cat/man/gvcm.cat-internal.Rd | 17
gvcm.cat-1.5/gvcm.cat/man/gvcm.cat.Rd | 134 +++--
gvcm.cat-1.5/gvcm.cat/man/index.Rd | 37 +
gvcm.cat-1.5/gvcm.cat/man/plot.gvcm.cat.Rd | 44 +
gvcm.cat-1.5/gvcm.cat/man/simulation.Rd | 7
40 files changed, 2702 insertions(+), 1074 deletions(-)
Title: R Interface to C API of GLPK
Diff between glpkAPI versions 1.2.5 dated 2012-11-15 and 1.2.6 dated 2013-02-12
Description: R Interface to C API of GLPK, needs GLPK Version >= 4.42
Author: Gabriel Gelius-Dietrich [aut, cre]
Maintainer: Gabriel Gelius-Dietrich
DESCRIPTION | 8 +-
MD5 | 130 ++++++++++++++++++++---------------------
R/generics.R | 2
R/glpk.R | 2
R/glpkAPI.R | 15 ++--
R/glpk_ptrClass.R | 2
R/zzz.R | 7 +-
configure | 21 +++---
configure.ac | 3
inst/INSTALL | 12 +--
inst/NEWS.Rd | 12 +++
inst/doc/glpkAPI.pdf |binary
man/copyProbGLPK.Rd | 2
man/factorizeGLPK.Rd | 2
man/getBfcpGLPK.Rd | 2
man/getColStatGLPK.Rd | 2
man/getColTypeGLPK.Rd | 2
man/getDualStatGLPK.Rd | 2
man/getInteriorParmGLPK.Rd | 2
man/getMIPParmGLPK.Rd | 2
man/getObjCoefGLPK.Rd | 4 -
man/getObjCoefsGLPK.Rd | 4 -
man/getObjDirGLPK.Rd | 2
man/getPrimStatGLPK.Rd | 2
man/getRowStatGLPK.Rd | 2
man/getRowTypeGLPK.Rd | 2
man/getSimplexParmGLPK.Rd | 2
man/getSolStatGLPK.Rd | 2
man/getSolStatIptGLPK.Rd | 2
man/loadMatrixGLPK.Rd | 8 --
man/mplPostsolveGLPK.Rd | 4 -
man/readMPSGLPK.Rd | 2
man/return_codeGLPK.Rd | 2
man/scaleProbGLPK.Rd | 3
man/setBfcpGLPK.Rd | 2
man/setColBndGLPK.Rd | 3
man/setColKindGLPK.Rd | 3
man/setColStatGLPK.Rd | 3
man/setColsBndsGLPK.Rd | 3
man/setColsBndsObjCoefsGLPK.Rd | 3
man/setColsKindGLPK.Rd | 3
man/setDefaultIptParmGLPK.Rd | 2
man/setDefaultMIPParmGLPK.Rd | 2
man/setDefaultSmpParmGLPK.Rd | 2
man/setInteriorParmGLPK.Rd | 3
man/setMIPParmGLPK.Rd | 3
man/setObjDirGLPK.Rd | 5 -
man/setRowBndGLPK.Rd | 3
man/setRowStatGLPK.Rd | 4 -
man/setRowsBndsGLPK.Rd | 3
man/setSimplexParmGLPK.Rd | 3
man/solveInteriorGLPK.Rd | 3
man/solveMIPGLPK.Rd | 3
man/solveSimplexExactGLPK.Rd | 3
man/solveSimplexGLPK.Rd | 3
man/status_codeGLPK.Rd | 2
man/termOutGLPK.Rd | 6 -
man/versionGLPK.Rd | 4 -
man/writeMPSGLPK.Rd | 2
src/config.h.in | 2
src/glpkAPI.c | 106 ++++++++++++++++++++++++++-------
src/glpkAPI.h | 4 -
src/glpkCallback.c | 12 +++
src/glpkCallback.h | 2
src/glpkR.h | 83 ++++++++++++++++++++++----
src/init.c | 4 -
66 files changed, 357 insertions(+), 203 deletions(-)
Title: Fractional Factorial designs with 2-level factors
Diff between FrF2 versions 1.6-2 dated 2012-08-14 and 1.6-3 dated 2013-02-12
Description: This package creates regular and non-regular Fractional
Factorial designs. Furthermore, analysis tools for Fractional
Factorial designs with 2-level factors are offered (main
effects and interaction plots for all factors simultaneously,
cube plot for looking at the simultaneous effects of three
factors, full or half normal plot, alias structure in a more
readable format than with the built-in function alias). The
package is still under development. While much of the intended
functionality is already available, some changes and
improvements are still to be expected. Suggestions are welcome.
Author: Ulrike Groemping
Maintainer: Ulrike Groemping
DESCRIPTION | 8 +++---
MD5 | 20 ++++++++--------
NAMESPACE | 3 +-
R/BsProb.design.R | 65 ++--------------------------------------------------
R/aaa.R | 2 -
R/aliases.R | 6 ++--
R/estimable2fis.R | 6 ++--
R/sysdata.rda |binary
R/utilcat.R | 2 +
inst/NEWS | 10 ++++++++
man/utilitiesCat.Rd | 2 +
11 files changed, 40 insertions(+), 84 deletions(-)
Title: Practical Numerical Math Functions
Diff between pracma versions 1.3.8 dated 2013-01-11 and 1.4.0 dated 2013-02-12
Description: Functions from numerical analysis and linear algebra,
numerical optimization, differential equations, plus some
special functions. Uses Matlab function names where
appropriate to simplify porting.
Author: Hans W Borchers
Maintainer: HwB
DESCRIPTION | 14 +++++++-------
MD5 | 45 +++++++++++++++++++++++++--------------------
NEWS | 12 ++++++++++--
R/conv.R | 9 ---------
R/distmat.R | 3 +++
R/fderiv.R | 46 ++++++++++++++++++++++++++++------------------
R/fft.R |only
R/grad.R | 30 +++++++++++++++++++++++++++---
R/hessian.R | 4 ++--
R/itersolve.R |only
R/lu.R |only
R/matlab.R | 12 ++++++------
R/newtonsys.R | 22 ----------------------
R/taylor.R | 12 ++++++------
inst/NEWS.Rd | 20 ++++++++++++++++++--
inst/doc/NEWS.pdf |binary
man/distmat.Rd | 4 ++++
man/fderiv.Rd | 7 +++++--
man/grad.Rd | 6 +++---
man/hessian.Rd | 2 +-
man/ifft.Rd | 41 ++++++++++++++++++++++++++++++++++++++---
man/itersolve.Rd |only
man/jacobian.Rd | 6 +++---
man/laplacian.Rd | 2 +-
man/lu.Rd |only
man/pracma-package.Rd | 12 ++++++------
26 files changed, 193 insertions(+), 116 deletions(-)
Title: Statistical tools for the interpretation of forensic DNA
mixtures
Diff between forensim versions 3.2.1 dated 2012-12-21 and 3.2.2 dated 2013-02-12
Description: Statistical methods and simulation tools for the
interpretation of forensic DNA mixtures
Author: Hinda Haned
Maintainer: Hinda Haned
forensim-3.2.1/forensim/R/zzz.R |only
forensim-3.2.2/forensim/DESCRIPTION | 14 ++---
forensim-3.2.2/forensim/MD5 | 7 +-
forensim-3.2.2/forensim/R/LRmixTK.R | 87 ++++++++++++++++++++--------------
forensim-3.2.2/forensim/R/simMixSNP.R | 2
5 files changed, 63 insertions(+), 47 deletions(-)