Title: R interface to the yacas computer algebra system
Diff between Ryacas versions 0.2-11 dated 2011-09-07 and 0.2-12.1 dated 2014-09-14
Description: An interface to the yacas computer algebra system.
Author: Rob Goedman
Maintainer: G. Grothendieck
Ryacas-0.2-11/Ryacas/R/Num.R |only
Ryacas-0.2-11/Ryacas/R/Sym2.R |only
Ryacas-0.2-11/Ryacas/demo/Ryacas-Expr.R |only
Ryacas-0.2-11/Ryacas/inst/NEWS |only
Ryacas-0.2-11/Ryacas/inst/R.ys |only
Ryacas-0.2-11/Ryacas/inst/Ryacas.html |only
Ryacas-0.2-11/Ryacas/inst/THANKS |only
Ryacas-0.2-11/Ryacas/inst/VERSION |only
Ryacas-0.2-11/Ryacas/inst/doc/Ryacas-raw |only
Ryacas-0.2-11/Ryacas/inst/doc/Ryacas-raw.tex |only
Ryacas-0.2-11/Ryacas/inst/doc/Ryacas.tex |only
Ryacas-0.2-11/Ryacas/inst/old.Ryacas.html |only
Ryacas-0.2-12.1/Ryacas/DESCRIPTION | 15 ++----
Ryacas-0.2-12.1/Ryacas/MD5 | 40 +++++++---------
Ryacas-0.2-12.1/Ryacas/NAMESPACE |only
Ryacas-0.2-12.1/Ryacas/NEWS |only
Ryacas-0.2-12.1/Ryacas/R/Expr.R | 6 +-
Ryacas-0.2-12.1/Ryacas/R/sym.R |only
Ryacas-0.2-12.1/Ryacas/R/yacas.R | 65 ++++++++++++++-------------
Ryacas-0.2-12.1/Ryacas/R/zzz.R | 16 ++++--
Ryacas-0.2-12.1/Ryacas/THANKS |only
Ryacas-0.2-12.1/Ryacas/build |only
Ryacas-0.2-12.1/Ryacas/demo/00Index | 10 +---
Ryacas-0.2-12.1/Ryacas/inst/doc/Ryacas-raw.R |only
Ryacas-0.2-12.1/Ryacas/inst/doc/Ryacas.Rnw | 2
Ryacas-0.2-12.1/Ryacas/inst/doc/Ryacas.pdf |binary
Ryacas-0.2-12.1/Ryacas/man/Eval.Rd | 6 +-
Ryacas-0.2-12.1/Ryacas/man/yacas.Rd | 7 ++
Ryacas-0.2-12.1/Ryacas/vignettes |only
29 files changed, 88 insertions(+), 79 deletions(-)
Title: NetWeAvers: Weighted Averages for Networks
Diff between netweavers versions 1.0 dated 2013-06-24 and 1.1 dated 2014-09-14
Description: This package summarizes quantified peptide data, fits linear models on
and performs network analysis for proteomics mass spectrometry data.
Author: Elizabeth McClellan Ribble
Maintainer: Elizabeth Ribble
netweavers-1.0/netweavers/inst/doc/cluster5.png |only
netweavers-1.1/netweavers/DESCRIPTION | 17 ++++++++---------
netweavers-1.1/netweavers/MD5 | 14 ++++++++------
netweavers-1.1/netweavers/NAMESPACE | 4 ++++
netweavers-1.1/netweavers/build |only
netweavers-1.1/netweavers/data/vanHoof.rda |binary
netweavers-1.1/netweavers/inst/doc/netweavers.Rnw | 2 +-
netweavers-1.1/netweavers/inst/doc/netweavers.pdf |binary
netweavers-1.1/netweavers/vignettes |only
9 files changed, 21 insertions(+), 16 deletions(-)
Title: A GUI for Missing Data Exploration
Diff between MissingDataGUI versions 0.2-0 dated 2014-03-20 and 0.2-2 dated 2014-09-14
More information about MissingDataGUI at CRAN
Description: Provides numeric and graphical
summaries for the missing values from both categorical
and quantitative variables. A variety of imputation
methods are applied, including the univariate imputations
like fixed or random values, multivariate imputations
like the nearest neighbors and multiple imputations,
and imputations conditioned on a categorical variable.
Author: Xiaoyue Cheng, Dianne Cook, Heike Hofmann
Maintainer: Xiaoyue Cheng
MissingDataGUI-0.2-0/MissingDataGUI/man/cbPalette.Rd |only
MissingDataGUI-0.2-0/MissingDataGUI/man/library_call.Rd |only
MissingDataGUI-0.2-0/MissingDataGUI/man/library_gui.Rd |only
MissingDataGUI-0.2-0/MissingDataGUI/man/mice_default.Rd |only
MissingDataGUI-0.2-0/MissingDataGUI/man/winprint.Rd |only
MissingDataGUI-0.2-2/MissingDataGUI/DESCRIPTION | 12
MissingDataGUI-0.2-2/MissingDataGUI/MD5 | 43 -
MissingDataGUI-0.2-2/MissingDataGUI/NAMESPACE | 12
MissingDataGUI-0.2-2/MissingDataGUI/NEWS | 7
MissingDataGUI-0.2-2/MissingDataGUI/R/MissingDataGUI-package.r | 1
MissingDataGUI-0.2-2/MissingDataGUI/R/MissingDataGUI.r | 1
MissingDataGUI-0.2-2/MissingDataGUI/R/WatchMissingValues.r | 27
MissingDataGUI-0.2-2/MissingDataGUI/R/imputation.r | 34 -
MissingDataGUI-0.2-2/MissingDataGUI/R/utils.r | 34 -
MissingDataGUI-0.2-2/MissingDataGUI/build/vignette.rds |binary
MissingDataGUI-0.2-2/MissingDataGUI/inst/doc/introduction.pdf |binary
MissingDataGUI-0.2-2/MissingDataGUI/man/MissingDataGUI-package.Rd | 13
MissingDataGUI-0.2-2/MissingDataGUI/man/MissingDataGUI.Rd | 87 +--
MissingDataGUI-0.2-2/MissingDataGUI/man/WatchMissingValues.Rd | 110 +--
MissingDataGUI-0.2-2/MissingDataGUI/man/brfss.Rd | 281 ++++------
MissingDataGUI-0.2-2/MissingDataGUI/man/compute_missing_pct.Rd | 17
MissingDataGUI-0.2-2/MissingDataGUI/man/imputation.Rd | 166 ++---
MissingDataGUI-0.2-2/MissingDataGUI/man/scale_colour_discrete.Rd | 10
MissingDataGUI-0.2-2/MissingDataGUI/man/scale_fill_discrete.Rd | 10
MissingDataGUI-0.2-2/MissingDataGUI/man/tao.Rd | 66 +-
25 files changed, 458 insertions(+), 473 deletions(-)
Permanent link
Title: Aggregation Operators and Preordered Sets
Diff between agop versions 0.1-3 dated 2013-06-27 and 0.1-4 dated 2014-09-14
Description: Tools supporting multi-criteria decision making, including
variable number of criteria, by means of aggregation operators
and preordered sets. Possible applications include, but are not
limited to, scientometrics and bibliometrics.
Author: Marek Gagolewski [aut, cre],
Anna Cena [ctb]
Maintainer: Marek Gagolewski
agop-0.1-3/agop/.Rinstignore |only
agop-0.1-3/agop/inst/doc |only
agop-0.1-3/agop/inst/tests |only
agop-0.1-4/agop/DESCRIPTION | 30 +---
agop-0.1-4/agop/MD5 | 74 ++++------
agop-0.1-4/agop/NAMESPACE | 6
agop-0.1-4/agop/NEWS | 6
agop-0.1-4/agop/R/agop-package.R | 78 +++++------
agop-0.1-4/agop/inst/CITATION | 8 -
agop-0.1-4/agop/man/Pareto2.Rd | 55 +++----
agop-0.1-4/agop/man/agop-package.Rd | 176 +++++++++++--------------
agop-0.1-4/agop/man/closure_total_fair.Rd | 30 ++--
agop-0.1-4/agop/man/closure_transitive.Rd | 25 +--
agop-0.1-4/agop/man/de_transitive.Rd | 25 +--
agop-0.1-4/agop/man/get_equivalence_classes.Rd | 32 ++--
agop-0.1-4/agop/man/get_incomparable_pairs.Rd | 33 ++--
agop-0.1-4/agop/man/get_independent_sets.Rd | 39 ++---
agop-0.1-4/agop/man/index_g.Rd | 73 ++++------
agop-0.1-4/agop/man/index_h.Rd | 48 +++---
agop-0.1-4/agop/man/index_lp.Rd | 92 +++++--------
agop-0.1-4/agop/man/index_maxprod.Rd | 42 ++---
agop-0.1-4/agop/man/index_rp.Rd | 76 ++++------
agop-0.1-4/agop/man/index_w.Rd | 41 ++---
agop-0.1-4/agop/man/is_reflexive.Rd | 32 ++--
agop-0.1-4/agop/man/is_total.Rd | 29 ++--
agop-0.1-4/agop/man/is_transitive.Rd | 31 ++--
agop-0.1-4/agop/man/owa.Rd | 67 ++++-----
agop-0.1-4/agop/man/owmax.Rd | 104 +++++++-------
agop-0.1-4/agop/man/pareto2_estimate_mle.Rd | 57 ++++----
agop-0.1-4/agop/man/pareto2_estimate_mmse.Rd | 33 ++--
agop-0.1-4/agop/man/pareto2_test_f.Rd | 97 ++++++-------
agop-0.1-4/agop/man/plot_producer.Rd | 85 +++++-------
agop-0.1-4/agop/man/pord_weakdom.Rd | 34 ++--
agop-0.1-4/agop/man/rel_graph.Rd | 33 ++--
34 files changed, 774 insertions(+), 817 deletions(-)
Title: DBI/RJDBC interface to h2 Database
Diff between RH2 versions 0.1-2.12 dated 2014-03-31 and 0.2.3 dated 2014-09-14
Description: DBI/RJDBC interface to h2 database. h2 version 1.3.175 is included.
Author: G. Grothendieck. Author of h2 is Thomas Mueller.
Maintainer: "David M. Kaplan"
RH2-0.1-2.12/RH2/inst/java/h2-1.3.170.jar |only
RH2-0.2.3/RH2/DESCRIPTION | 16 -
RH2-0.2.3/RH2/MD5 | 14 -
RH2-0.2.3/RH2/NAMESPACE | 1
RH2-0.2.3/RH2/NEWS | 165 +++++++------
RH2-0.2.3/RH2/R/class.R | 358 +++++++++++++++---------------
RH2-0.2.3/RH2/README.md |only
RH2-0.2.3/RH2/inst/INSTALL | 2
RH2-0.2.3/RH2/inst/java/h2-1.3.175.jar |only
RH2-0.2.3/RH2/java |only
10 files changed, 293 insertions(+), 263 deletions(-)
Title: Rcmdr Coin Plug-In
Diff between RcmdrPlugin.coin versions 1.0-21 dated 2012-10-30 and 1.0-22 dated 2014-09-14
More information about RcmdrPlugin.coin at CRAN
Description: This package provides a Rcmdr "plug-in" based on coin (Conditional Inference Procedures in a Permutation Test Framework).
Author: Daniel-Corneliu Leucuta
Maintainer: Daniel-Corneliu Leucuta
DESCRIPTION | 15 -
MD5 | 27 +--
NAMESPACE | 6
NEWS |only
R/fncCoinCochraneMHTest.R | 135 +++++++++++++---
R/fncCoinFriedmanTest.R | 6
R/fncCoinKruskalWallisTest.R | 2
R/fncCoinMHTest.R | 320 ++++++++++++++++++++++++---------------
R/fncCoinSurvivalFunctions.R | 4
R/fncCoinSymmetryTest.R |only
R/fncCoinTwoWayTable.R | 222 ++++++++++++++++++++-------
R/globals.R |only
R/startup.R | 2
inst/etc/menus.txt | 3
man/RcmdrPlugin.coin-internal.Rd | 50 +++---
man/RcmdrPlugin.coin-package.Rd | 9 -
16 files changed, 549 insertions(+), 252 deletions(-)
Permanent link
Title: methods for multigroup data analysis
Diff between multigroup versions 0.4.1 dated 2014-09-04 and 0.4.2 dated 2014-09-14
Description: This package includes several methods to study multigroup data,
where the same set of variables are measured on different groups of
individuals.
Author: Aida Eslami, El Mostafa Qannari, Stephanie Bougeard, Gaston Sanchez
Questions and comments go to Aida Eslami
Maintainer: Aida Eslami
DESCRIPTION | 13
MD5 | 62 +--
NAMESPACE | 69 +--
R/FCPCA.R | 2
R/loadingsplotXY.R |only
R/mgPCA.R | 599 ++++++++++++++++----------------
R/mgPLS.R | 820 ++++++++++++++++++++++-----------------------
man/BGC.Rd | 139 +++----
man/DCCSWA.Rd | 131 +++----
man/DGPA.Rd | 132 +++----
man/DSTATIS.Rd | 137 +++----
man/FCPCA.Rd | 118 +++---
man/TBWvariance.Rd | 91 ++--
man/Trace.Rd | 29 -
man/deflation.Rd | 39 +-
man/iteraite_fun_Iter.Rd | 35 -
man/loadingsplot.Rd | 64 +--
man/loadingsplotXY.Rd |only
man/mbmgPCA.Rd | 197 ++++------
man/mgPCA.Rd | 185 +++++-----
man/mgPLS.Rd | 190 +++++-----
man/multigroup.Rd | 54 +-
man/normM.Rd | 35 -
man/normv.Rd | 35 -
man/plot.mg.Rd | 51 +-
man/prepare_data.Rd | 39 +-
man/project.Rd | 29 -
man/scoreplot.Rd | 58 +--
man/select_initial_Iter.Rd | 42 +-
man/similarity_function.Rd | 29 -
man/similarity_noncum.Rd | 30 -
man/summarize.Rd | 73 +---
man/transfer_Group.Rd | 51 +-
33 files changed, 1757 insertions(+), 1821 deletions(-)
Title: Functions for kernel smoothing for Wand & Jones (1995)
Diff between KernSmooth versions 2.23-12 dated 2014-03-28 and 2.23-13 dated 2014-09-14
Description: functions for kernel smoothing (and density estimation)
corresponding to the book:
Wand, M.P. and Jones, M.C. (1995) "Kernel Smoothing".
Author: Matt Wand [aut],
Brian Ripley [trl, cre, ctb] (R port and updates)
Maintainer: Brian Ripley
KernSmooth-2.23-12/KernSmooth/Licence.note |only
KernSmooth-2.23-12/KernSmooth/orig |only
KernSmooth-2.23-13/KernSmooth/DESCRIPTION | 8 ++++----
KernSmooth-2.23-13/KernSmooth/LICENCE.note |only
KernSmooth-2.23-13/KernSmooth/MD5 | 13 ++++---------
KernSmooth-2.23-13/KernSmooth/PORTING | 15 ++++++++++++++-
KernSmooth-2.23-13/KernSmooth/R/all.R | 2 +-
7 files changed, 23 insertions(+), 15 deletions(-)
Title: Network Reconstruction and Changepoint Detection
Diff between EDISON versions 1.0 dated 2012-07-16 and 1.1 dated 2014-09-14
Description: Package EDISON (Estimation of Directed Interactions from
Sequences Of Non-homogeneous gene expression) runs an MCMC
simulation to reconstruct networks from time series data, using
a non-homogeneous, time-varying dynamic Bayesian network.
Networks segments and changepoints are inferred concurrently,
and information sharing priors provide a reduction of the
inference uncertainty.
Author: Frank Dondelinger, Sophie Lebre
Maintainer: Frank Dondelinger
DESCRIPTION | 26 +--
MD5 | 242 ++++++++++++++--------------
NAMESPACE | 68 +++++++
R/AcceptableMove.R | 75 +++++---
R/BinoHyperMove.R | 29 +++
R/BinoHyperRatio.R | 28 +++
R/CalculateChanges.R | 19 ++
R/CalculateLikelihoodRatio.R | 25 ++
R/CalculatePriorRatio.R | 30 +++
R/CollectNetworkInfo.R | 38 ++++
R/EDISON-package.R |only
R/EDISON.run.R | 67 +++++++
R/ExpHyperMove.R | 32 +++
R/ExpHyperRatioTarget.R | 26 +++
R/HyperParms.R | 21 ++
R/HyperparameterMove.R | 33 +++
R/NetworkProbBino.R | 25 ++
R/NetworkProbExp.R | 21 ++
R/NetworkRatioBino.R | 22 ++
R/NetworkRatioExp.R | 22 ++
R/PriorRatioPoisson.R | 59 ++++--
R/ProposeDiscrete.R | 24 ++
R/addProposalNetworkInfo.R |only
R/bp.computeAlpha.R | 36 ++++
R/buildXY.R | 13 +
R/calculateCPPGlobal.R | 13 +
R/calculateCPProbabilities.R | 25 ++
R/calculateEdgeProbabilities.R | 36 ++++
R/calculateEdgeProbabilitiesSegs.R | 21 ++
R/calculateEdgeProbabilitiesTimePoints.R | 117 +++++++------
R/computePx.R | 19 ++
R/computeRho4.R | 22 ++
R/convert_nets.R | 56 ++++--
R/cp.birth.R | 40 ++++
R/cp.death.R | 39 ++++
R/cp.shift.R | 36 ++++
R/defaultOptions.R | 43 ++++
R/dinvgamma.R | 21 ++
R/fix_eigenvalues.R | 17 +
R/generateNetwork.R | 51 +++++
R/init.R | 28 ++-
R/main.R | 26 +++
R/make_structure_move.R | 92 +++++++---
R/output.R | 23 ++
R/phase.update.R | 43 ++++
R/proposalTuning.R | 12 +
R/proposeContinuous.R | 22 ++
R/psrf.R | 45 +++++
R/psrf_check.R | 16 +
R/psrf_check_hyper.R | 14 +
R/readDataTS.R | 15 +
R/rinvgamma.R | 21 ++
R/runDBN.R | 54 ++++++
R/sampleBinit.R | 18 ++
R/sampleBxy.R | 18 ++
R/sampleDelta2.R | 21 ++
R/sampleK.R | 18 ++
R/sampleParms.R | 36 ++++
R/sampleSig2.R | 18 ++
R/simulateNetwork.R | 70 ++++++++
R/updateNetworkInfo.R |only
R/updateSigMulti.R | 27 +++
R/updateSigSolo.R | 26 +++
inst |only
man/AcceptableMove.Rd | 65 ++++---
man/BinoHyperMove.Rd | 96 +++++------
man/BinoHyperRatio.Rd | 100 +++++------
man/CalculateChanges.Rd | 62 +++----
man/CalculateLikelihoodRatio.Rd | 95 +++++-----
man/CalculatePriorRatio.Rd | 99 +++++------
man/CollectNetworkInfo.Rd | 101 +++++------
man/EDISON-package.Rd | 100 +++++------
man/EDISON.run.Rd | 155 +++++++++--------
man/ExpHyperMove.Rd | 110 +++++-------
man/ExpHyperRatioTarget.Rd | 96 +++++------
man/HyperParms.Rd | 70 +++-----
man/HyperparameterMove.Rd | 107 +++++-------
man/NetworkProbBino.Rd | 86 ++++-----
man/NetworkProbExp.Rd | 76 ++++----
man/NetworkRatioBino.Rd | 73 ++++----
man/NetworkRatioExp.Rd | 75 ++++----
man/PriorRatioPoisson.Rd | 75 ++++----
man/ProposeDiscrete.Rd | 82 ++++-----
man/addProposalNetworkInfo.Rd |only
man/bp.computeAlpha.Rd | 141 +++++++---------
man/buildXY.Rd | 54 +++---
man/calculateCPPGlobal.Rd | 52 +++---
man/calculateCPProbabilities.Rd | 72 ++++----
man/calculateEdgeProbabilities.Rd | 100 +++++------
man/calculateEdgeProbabilitiesSegs.Rd | 73 ++++----
man/calculateEdgeProbabilitiesTimePoints.Rd | 73 +++-----
man/computePx.Rd | 78 ++++-----
man/computeRho4.Rd | 86 ++++-----
man/convert_nets.Rd | 61 +++----
man/cp.birth.Rd | 140 +++++++---------
man/cp.death.Rd | 142 +++++++---------
man/cp.shift.Rd | 134 ++++++---------
man/defaultOptions.Rd | 104 +++++-------
man/dinvgamma.Rd | 77 +++-----
man/fix_eigenvalues.Rd | 68 +++----
man/generateNetwork.Rd | 160 ++++++++----------
man/init.Rd | 90 ++++------
man/main.Rd | 89 +++++-----
man/make_structure_move.Rd | 126 +++++++-------
man/output.Rd | 77 ++++----
man/phase.update.Rd | 137 +++++++--------
man/proposalTuning.Rd | 54 ++----
man/proposeContinuous.Rd | 76 ++++----
man/psrf.Rd | 118 ++++++-------
man/psrf_check.Rd | 75 +++-----
man/psrf_check_hyper.Rd | 66 +++----
man/readDataTS.Rd | 78 +++------
man/rinvgamma.Rd | 79 ++++-----
man/runDBN.Rd | 164 +++++++++---------
man/sampleBinit.Rd | 81 ++++-----
man/sampleBxy.Rd | 77 +++-----
man/sampleDelta2.Rd | 95 ++++------
man/sampleK.Rd | 77 +++-----
man/sampleParms.Rd | 103 +++++------
man/sampleSig2.Rd | 77 +++-----
man/simulateNetwork.Rd | 209 +++++++++++-------------
man/updateSigMulti.Rd | 126 ++++++--------
man/updateSigSolo.Rd | 120 +++++--------
tests |only
124 files changed, 4515 insertions(+), 3217 deletions(-)
Title: Recursively Partitioned Mixture Model
Diff between RPMM versions 1.10 dated 2012-03-16 and 1.20 dated 2014-09-14
Description:
Recursively Partitioned Mixture Model for Beta and Gaussian Mixtures.
This is a model-based clustering algorithm that returns a hierarchy
of classes, similar to hierarchical clustering, but also similar to
finite mixture models.
Author: E. Andres Houseman, Sc.D. and Devin C. Koestler, Ph.D.
Maintainer: E. Andres Houseman
DESCRIPTION | 20 ++++---
MD5 | 8 +--
R/betaRPMM.R | 137 ++++++++++++++++++++++++++----------------------------
R/gaussRPMM.R | 144 +++++++++++++++++++++++++++------------------------------
man/glcTree.Rd | 5 +
5 files changed, 155 insertions(+), 159 deletions(-)
Title: Analysis of geostatistical data
Diff between geoR versions 1.7-4 dated 2012-07-05 and 1.7-4.1 dated 2014-09-14
Description: Geostatistical analysis including traditional,
likelihood-based and Bayesian methods.
Author: Paulo J. Ribeiro Jr
Maintainer: Paulo J. Ribeiro Jr
DESCRIPTION | 7 ++++---
MD5 | 6 +++---
R/Cwrappers.R | 18 +++++++-----------
R/geoRdefunct.R | 10 ++++------
4 files changed, 18 insertions(+), 23 deletions(-)