Title: A Tcl/Tk GUI for the functions in the ca package
Diff between caGUI versions 0.1-3 dated 2010-03-01 and 0.1-4 dated 2010-03-05
Description: A Graphical User Interface (GUI) for computation and
visualization of simple, multiple and joint correspondence
analysis with the ca package.
Author: Angelos Markos
Maintainer: Angelos Markos
DESCRIPTION | 8 +++---
R/caGUI.r | 73 ++++++++----------------------------------------------------
2 files changed, 14 insertions(+), 67 deletions(-)
Title: Truncated Multivariate Normal and Student t Distribution
Diff between tmvtnorm versions 1.0-1 dated 2010-03-04 and 1.0-2 dated 2010-03-05
Description: Random number generation for the truncated multivariate
normal and Student t distribution. Computes probabilities,
quantiles and densities, including one-dimensional and
bivariate marginal densities. Computes first and second moments
(i.e. mean and covariance matrix) for the double-truncated
multinormal case.
Author: Stefan Wilhelm
Maintainer: Stefan Wilhelm
DESCRIPTION | 8 ++++----
R/rtmvt.R | 13 ++++++++++++-
man/rtmvt.Rd | 4 ++--
release-notes.txt | 6 ++++++
4 files changed, 24 insertions(+), 7 deletions(-)
Title: integrative mixture of experts
Diff between integrativeME versions 1.1 dated 2009-10-14 and 1.2 dated 2010-03-05
Description: Mixture of experts models (Jacobs et al., 1991) were
introduced to account for nonlinearities and other complexities
in the data. It is based on a divide-and-conquer strategy.
Mixture of experts are of interest due to their wide
applicability and the advantages of fast learning via the
expectation-maximization (EM) algorithm. We have extended and
implemented mixture of experts to combine categorical clinical
factors and continuous microarray data in a binary
classification framework to analyze cancer studies. To provide
a hybrid signature of clinical factors and gene markers, we
propose to apply different gene selection procedures as a first
step.
Author: Kim-Anh Le Cao
Maintainer: Kim-Anh Le Cao
integrativeME-1.1/integrativeME/copying |only
integrativeME-1.2/integrativeME/DESCRIPTION | 8 +++----
integrativeME-1.2/integrativeME/R/MEcont.R |only
integrativeME-1.2/integrativeME/R/integrativeME.R | 21 +++++++++++++++----
integrativeME-1.2/integrativeME/R/kmeans.R |only
integrativeME-1.2/integrativeME/R/kmeans.init.R | 7 +++++-
integrativeME-1.2/integrativeME/man/MEfunctions.Rd | 4 +++
integrativeME-1.2/integrativeME/man/integrativeME.Rd | 4 ++-
integrativeME-1.2/integrativeME/man/kmeansME.Rd |only
integrativeME-1.2/integrativeME/src/hybrid1.f |only
integrativeME-1.2/integrativeME/src/mecont.f |only
integrativeME-1.2/integrativeME/src/meindep.f | 2 -
12 files changed, 35 insertions(+), 11 deletions(-)
Title: Efficient selection of undirected graphical models for
high-dimensional datasets
Diff between gRapHD versions 0.1.5 dated 2010-01-20 and 0.1.6 dated 2010-03-05
Description: gRapHD is designed for efficient selection of
high-dimensional undirected graphical models. The package
provides tools for selecting trees, forests and decomposable
models minimizing information criteria such as AIC or BIC, and
for displaying the independence graphs of the models. It has
also some useful tools for analysing graphical structures. It
supports the use of discrete, continuous, or both types of
variables.
Author: Gabriel Coelho Goncalves de Abreu
Maintainer: Gabriel Coelho Goncalves de Abreu
DESCRIPTION | 6
R/functions.r | 136 +++++++++++++++--
man/minForest.Rd | 7
man/modelDim.rd | 10 -
man/plot.gRapHD.rd | 4
src/findEd.c | 409 +++++++++++++++++------------------------------------
src/minForest.c | 20 +-
7 files changed, 277 insertions(+), 315 deletions(-)
Title: Dendrochronology Program Library in R
Diff between dplR versions 1.2.8 dated 2010-02-28 and 1.2.9 dated 2010-03-05
Description: This package contains functions for performing some
standard tree-ring analyses.
Author: Andy Bunn with contributions from Mikko Korpela, Franco Biondi,
and Christain Zang
Maintainer: Andy Bunn
DESCRIPTION | 8 -
R/detrend.series.R | 118 ++++++++++++--------
R/ffcsaps.R | 294 +++++++++++++++-----------------------------------
man/combine.rwl.Rd | 2
man/detrend.series.Rd | 2
man/dplR-package.Rd | 7 -
man/ffcsaps.Rd | 9 -
man/gp.d2pith.Rd | 2
man/gp.dbh.Rd | 2
man/gp.po.Rd | 2
man/gp.rwl.Rd | 2
src/readloop.c | 17 +-
12 files changed, 190 insertions(+), 275 deletions(-)
Title: Global optimization by differential evolution
Diff between DEoptim versions 2.0-3 dated 2009-11-29 and 2.0-4 dated 2010-03-05
Description: This package provides the DEoptim function which performs
global optimization by differential evolution.
Author: David Ardia and Katharine Mullen
Maintainer: Katharine Mullen
DESCRIPTION | 6 +-
NEWS | 10 +++
R/DEoptim.R | 15 +++--
data |only
man/DEoptim.control.Rd | 42 ++++++++++++---
src/de4_0.c | 137 +++++++++++++++++++++++++++++++------------------
src/evaluate.c | 2
7 files changed, 145 insertions(+), 67 deletions(-)
Title: Calculates parameters of the seawater carbonate system
Diff between seacarb versions 2.3.1 dated 2010-01-26 and 2.3.2 dated 2010-03-05
Description: Calculates parameters of the seawater carbonate system
Author: Heloise Lavigne and Jean-Pierre Gattuso. Portions of code
and/or corrections were contributed by Jean-Marie Epitalon,
Bernard Gentili, Andreas Hofmann, Jim Orr, Aurelien Proye, and
Karline Soetaert
Maintainer: Jean-Pierre Gattuso
seacarb-2.3.1/seacarb/R/carb.R |only
seacarb-2.3.2/seacarb/ChangeLog | 410 ++++++++++++++++++------------------
seacarb-2.3.2/seacarb/DESCRIPTION | 8
seacarb-2.3.2/seacarb/R/K1.R | 55 ++++
seacarb-2.3.2/seacarb/R/K2.R | 55 ++++
seacarb-2.3.2/seacarb/R/Kf.R | 29 ++
seacarb-2.3.2/seacarb/R/buffer.R | 3
seacarb-2.3.2/seacarb/R/carb.r |only
seacarb-2.3.2/seacarb/R/kconv.R | 2
seacarb-2.3.2/seacarb/R/oa.R | 2
seacarb-2.3.2/seacarb/R/pCa.R | 2
seacarb-2.3.2/seacarb/R/pHinsi.r | 2
seacarb-2.3.2/seacarb/R/pTA.R | 2
seacarb-2.3.2/seacarb/R/pgas.R | 2
seacarb-2.3.2/seacarb/R/pmix.R | 2
seacarb-2.3.2/seacarb/R/ppH.R | 2
seacarb-2.3.2/seacarb/R/psi.R | 2
seacarb-2.3.2/seacarb/man/K1.Rd | 21 +
seacarb-2.3.2/seacarb/man/K2.Rd | 22 +
seacarb-2.3.2/seacarb/man/Kf.Rd | 13 -
seacarb-2.3.2/seacarb/man/Ks.Rd | 7
seacarb-2.3.2/seacarb/man/buffer.Rd | 33 ++
seacarb-2.3.2/seacarb/man/carb.Rd | 30 ++
seacarb-2.3.2/seacarb/man/kconv.Rd | 10
seacarb-2.3.2/seacarb/man/oa.Rd | 27 ++
seacarb-2.3.2/seacarb/man/pCa.Rd | 32 ++
seacarb-2.3.2/seacarb/man/pHinsi.Rd | 30 ++
seacarb-2.3.2/seacarb/man/pTA.Rd | 30 ++
seacarb-2.3.2/seacarb/man/pgas.Rd | 33 ++
seacarb-2.3.2/seacarb/man/pmix.Rd | 31 ++
seacarb-2.3.2/seacarb/man/ppH.Rd | 30 ++
seacarb-2.3.2/seacarb/man/psi.Rd | 29 ++
32 files changed, 662 insertions(+), 294 deletions(-)
Title: A Laboratory for Recursive Partytioning
Diff between party versions 0.9-9992 dated 2010-02-26 and 0.9-9993 dated 2010-03-05
Description: A computational toolbox for recursive partitioning. The
core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems,
including nominal, ordinal, numeric, censored as well as
multivariate response variables and arbitrary measurement
scales of the covariates. Based on conditional inference trees,
cforest() provides an implementation of Breiman's random
forests. The function mob() implements an algorithm for
recursive partitioning based on parametric models (e.g. linear
models, GLMs or survival regression) employing parameter
instability tests for split selection. Extensible functionality
for visualizing tree-structured regression models is available.
Author: Torsten Hothorn, Kurt Hornik, Carolin Strobl and Achim Zeileis
Maintainer: Torsten Hothorn
DESCRIPTION | 8 -
NEWS | 5
inst/doc/MOB.pdf | 14 +-
inst/doc/party.pdf |binary
inst/documentation/html/Classes_8c.html | 6
inst/documentation/html/Classes_8c_source.html | 2
inst/documentation/html/Classes_8h.html | 6
inst/documentation/html/Classes_8h_source.html | 2
inst/documentation/html/Convenience_8c.html | 2
inst/documentation/html/Convenience_8c_source.html | 2
inst/documentation/html/Convenience_8h.html | 2
inst/documentation/html/Convenience_8h_source.html | 2
inst/documentation/html/Distributions_8c.html | 2
inst/documentation/html/Distributions_8c_source.html | 2
inst/documentation/html/Distributions_8h.html | 2
inst/documentation/html/Distributions_8h_source.html | 2
inst/documentation/html/IndependenceTest_8c.html | 4
inst/documentation/html/IndependenceTest_8c_source.html | 2
inst/documentation/html/IndependenceTest_8h.html | 4
inst/documentation/html/IndependenceTest_8h_source.html | 2
inst/documentation/html/LinearStatistic_8c.html | 2
inst/documentation/html/LinearStatistic_8c_source.html | 2
inst/documentation/html/LinearStatistic_8h.html | 2
inst/documentation/html/LinearStatistic_8h_source.html | 2
inst/documentation/html/Node_8c.html | 4
inst/documentation/html/Node_8c_source.html | 2
inst/documentation/html/Node_8h.html | 4
inst/documentation/html/Node_8h_source.html | 2
inst/documentation/html/Predict_8c.html | 2
inst/documentation/html/Predict_8c_source.html | 2
inst/documentation/html/Predict_8h.html | 2
inst/documentation/html/Predict_8h_source.html | 2
inst/documentation/html/RandomForest_8c.html | 4
inst/documentation/html/RandomForest_8c_a4f54420cb561055a4e545f7e1359fb87_cgraph.map | 2
inst/documentation/html/RandomForest_8c_a4f54420cb561055a4e545f7e1359fb87_cgraph.md5 | 2
inst/documentation/html/RandomForest_8c_source.html | 4
inst/documentation/html/S3Classes_8c.html | 2
inst/documentation/html/S3Classes_8c_source.html | 2
inst/documentation/html/S3Classes_8h.html | 2
inst/documentation/html/S3Classes_8h_source.html | 2
inst/documentation/html/Splits_8c.html | 2
inst/documentation/html/Splits_8c_source.html | 2
inst/documentation/html/Splits_8h.html | 2
inst/documentation/html/Splits_8h_source.html | 2
inst/documentation/html/SurrogateSplits_8c.html | 4
inst/documentation/html/SurrogateSplits_8c_source.html | 2
inst/documentation/html/SurrogateSplits_8h.html | 4
inst/documentation/html/SurrogateSplits_8h_source.html | 2
inst/documentation/html/TestStatistic_8c.html | 2
inst/documentation/html/TestStatistic_8c_source.html | 2
inst/documentation/html/TestStatistic_8h.html | 2
inst/documentation/html/TestStatistic_8h_source.html | 2
inst/documentation/html/TreeGrow_8c.html | 2
inst/documentation/html/TreeGrow_8c_source.html | 2
inst/documentation/html/TreeGrow_8h.html | 2
inst/documentation/html/TreeGrow_8h_source.html | 2
inst/documentation/html/Utils_8c.html | 54 +++++---
inst/documentation/html/Utils_8c_a98f2de1eb2ad7315b48e7e2d9e7a829c_cgraph.map |only
inst/documentation/html/Utils_8c_a98f2de1eb2ad7315b48e7e2d9e7a829c_cgraph.md5 |only
inst/documentation/html/Utils_8c_a98f2de1eb2ad7315b48e7e2d9e7a829c_cgraph.png |only
inst/documentation/html/Utils_8c_aaec073990f0281325ebe4e1c08bca3ba_cgraph.map |only
inst/documentation/html/Utils_8c_aaec073990f0281325ebe4e1c08bca3ba_cgraph.md5 |only
inst/documentation/html/Utils_8c_aaec073990f0281325ebe4e1c08bca3ba_cgraph.png |only
inst/documentation/html/Utils_8c_source.html | 62 +++++-----
inst/documentation/html/Utils_8h.html | 31 +++--
inst/documentation/html/Utils_8h_a98f2de1eb2ad7315b48e7e2d9e7a829c_cgraph.map |only
inst/documentation/html/Utils_8h_a98f2de1eb2ad7315b48e7e2d9e7a829c_cgraph.md5 |only
inst/documentation/html/Utils_8h_a98f2de1eb2ad7315b48e7e2d9e7a829c_cgraph.png |only
inst/documentation/html/Utils_8h_source.html | 4
inst/documentation/html/dir_6c30642956b040afcd6ed9c9ec492c91.html | 2
inst/documentation/html/dirs.html | 2
inst/documentation/html/files.html | 2
inst/documentation/html/globals.html | 2
inst/documentation/html/globals_0x62.html | 2
inst/documentation/html/globals_0x63.html | 6
inst/documentation/html/globals_0x67.html | 2
inst/documentation/html/globals_0x68.html | 2
inst/documentation/html/globals_0x69.html | 2
inst/documentation/html/globals_0x6c.html | 2
inst/documentation/html/globals_0x6d.html | 2
inst/documentation/html/globals_0x6e.html | 2
inst/documentation/html/globals_0x70.html | 2
inst/documentation/html/globals_0x71.html | 2
inst/documentation/html/globals_0x72.html | 4
inst/documentation/html/globals_0x73.html | 2
inst/documentation/html/globals_0x74.html | 2
inst/documentation/html/globals_0x75.html | 2
inst/documentation/html/globals_defs.html | 2
inst/documentation/html/globals_func.html | 6
inst/documentation/html/globals_func_0x67.html | 2
inst/documentation/html/globals_func_0x68.html | 2
inst/documentation/html/globals_func_0x69.html | 2
inst/documentation/html/globals_func_0x6c.html | 2
inst/documentation/html/globals_func_0x6d.html | 2
inst/documentation/html/globals_func_0x6e.html | 2
inst/documentation/html/globals_func_0x70.html | 2
inst/documentation/html/globals_func_0x72.html | 4
inst/documentation/html/globals_func_0x73.html | 2
inst/documentation/html/globals_func_0x75.html | 2
inst/documentation/html/globals_vars.html | 2
inst/documentation/html/graph_legend.html | 2
inst/documentation/html/main.html | 2
inst/documentation/html/mvt_8f.html | 2
inst/documentation/html/mvt_8f_source.html | 2
inst/documentation/html/mvt_8h.html | 2
inst/documentation/html/mvt_8h_source.html | 2
inst/documentation/html/pages.html | 2
inst/documentation/html/party_8h.html | 8 -
inst/documentation/html/party_8h_source.html | 2
inst/documentation/html/todo.html | 2
src/RandomForest.c | 2
src/Utils.c | 16 +-
src/Utils.h | 2
113 files changed, 235 insertions(+), 191 deletions(-)
Title: Model-Based Boosting
Diff between mboost versions 2.0-1 dated 2010-03-01 and 2.0-2 dated 2010-03-05
Description: Functional gradient descent algorithm (boosting) for
optimizing general risk functions utilizing component-wise
(penalised) least squares estimates or regression trees as
base-learners for fitting generalized linear, additive and
interaction models to potentially high-dimensional data.
Author: Torsten Hothorn, Peter Buehlmann, Thomas Kneib, Matthias Schmid
and Benjamin Hofner
Maintainer: Torsten Hothorn
DESCRIPTION | 10 +++++-----
NEWS | 21 +++++++++++++++------
R/btree.R | 2 +-
R/helpers.R | 6 +-----
inst/CHANGES | 21 +++++++++++++++------
inst/doc/SurvivalEnsembles.pdf |binary
inst/doc/mboost_illustrations.pdf |binary
man/mboost_package.Rd | 4 ++--
tests/bugfixes.R | 22 ++++++++++++++++++++++
tests/bugfixes.Rout.save | 22 ++++++++++++++++++++++
10 files changed, 83 insertions(+), 25 deletions(-)
Title: Estimate inverse probability weights.
Diff between ipw versions 1.0-2 dated 2010-02-14 and 1.0-3 dated 2010-03-05
Description: Estimate inverse probability weights. These are typically
used to perform inverse probability weighting (IPW) to fit a
marginal structural model (MSM), to estimate causal effects
from observational data. Both data from point treatment
situations and longitudinal studies can be used.
Author: Willem M. van der Wal
Maintainer: Willem M. van der Wal
ipw-1.0-2/ipw/data/healthdat.rda |only
ipw-1.0-2/ipw/man/healthdat.Rd |only
ipw-1.0-3/ipw/DESCRIPTION | 9 +++--
ipw-1.0-3/ipw/man/basdat.Rd | 2 -
ipw-1.0-3/ipw/man/haartdat.Rd | 2 -
ipw-1.0-3/ipw/man/ipwplot.Rd | 6 +--
ipw-1.0-3/ipw/man/ipwpoint.Rd | 64 ++++++++++++++++++---------------------
ipw-1.0-3/ipw/man/ipwtm.Rd | 58 ++++-------------------------------
ipw-1.0-3/ipw/man/timedat.Rd | 2 -
ipw-1.0-3/ipw/man/tstartfun.Rd | 4 +-
10 files changed, 51 insertions(+), 96 deletions(-)