Title: Community Ecology Package
Diff between vegan versions 1.17-1 dated 2010-02-18 and 1.17-2 dated 2010-03-08
Description: Ordination methods, diversity analysis and other functions
for community and vegetation ecologists.
Author: Jari Oksanen, F. Guillaume Blanchet, Roeland Kindt, Pierre
Legendre, R. B. O'Hara, Gavin L. Simpson, Peter Solymos, M.
Henry H. Stevens, Helene Wagner
Maintainer: Jari Oksanen
DESCRIPTION | 10
R/densityplot.oecosimu.R | 3
R/nesteddisc.R | 23
R/ordistep.R | 5
R/print.permutest.betadisper.R | 5
R/screeplot.cca.R | 42
R/screeplot.prcomp.R | 31
R/screeplot.princomp.R | 31
inst/ChangeLog | 23
inst/NEWS | 29
inst/doc/FAQ-vegan.pdf |binary
inst/doc/decision-vegan.Rnw | 2
inst/doc/decision-vegan.pdf | 4070 +++++++++++++++++++++--------------------
inst/doc/decision-vegan.tex | 16
inst/doc/diversity-vegan.Rnw | 2
inst/doc/diversity-vegan.pdf |binary
inst/doc/diversity-vegan.tex | 67
inst/doc/intro-vegan.Rnw | 2
inst/doc/intro-vegan.pdf |binary
inst/doc/intro-vegan.tex | 49
man/ordistep.Rd | 11
man/screeplot.cca.Rd | 9
22 files changed, 2411 insertions(+), 2019 deletions(-)
Title: Processing and Simulating Genotype Data for Trio Logic
Regression
Diff between trio versions 1.0.13 dated 2010-03-04 and 1.0.14 dated 2010-03-08
Description: Set up matched case-pseudo controls genotypes data for
trios in order to run trio logic regreesion, to impute missing
genotypes in trios, or to simulate case-parent trios with
disease risk dependent on SNP-SNP interaction. This package
furthermore contains functions for computing the values of
pairwise LD measures and for identifying LD blocks.
Author: Qing Li, Holger Schwender
Maintainer: Qing Li
DESCRIPTION | 8
R/tdt.R | 83 +++-
inst/doc/trio.pdf | 1067 ++++++++++++++++++++++++++----------------------------
man/tdt2way.Rd | 16
4 files changed, 609 insertions(+), 565 deletions(-)
Title: Estimate inverse probability weights.
Diff between ipw versions 1.0-3 dated 2010-03-05 and 1.0-4 dated 2010-03-08
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
DESCRIPTION | 6 +++---
R/tstartfun.R | 9 ++++-----
man/ipwpoint.Rd | 16 ++++++++++------
man/tstartfun.Rd | 3 +--
4 files changed, 18 insertions(+), 16 deletions(-)
Title: Interactive visualization of dataframes and factorial planes
Diff between dynGraph versions 0.99070509 dated 2009-05-17 and 0.99100403 dated 2010-03-08
Description: Interactive visualization of dataframes and factorial
planes
Author: Sebastien Le, Julien Durand
Maintainer: Sebastien Le
dynGraph-0.99070509/dynGraph/inst/etc/dynGraph/R |only
dynGraph-0.99070509/dynGraph/inst/etc/dynGraph/dynGraph_new.jar |only
dynGraph-0.99100403/dynGraph/DESCRIPTION | 10 +++++-----
dynGraph-0.99100403/dynGraph/R/dynGraph.R | 9 ++++++---
dynGraph-0.99100403/dynGraph/man/dynGraph.Rd | 2 +-
5 files changed, 12 insertions(+), 9 deletions(-)
Title: Predict environmental conditions from biological observations
Diff between bio.infer versions 1.2-7 dated 2010-02-28 and 1.2-8 dated 2010-03-08
Description: Imports benthic count data, reformats this data, and
computes environmental inferences from this data.
Author: Lester L. Yuan
Maintainer: Lester L. Yuan
DESCRIPTION | 8 ++--
R/get.otu.R | 88 +++++++++++++++++++++++++++---------------------------
R/get.taxonomic.R | 9 ++++-
3 files changed, 57 insertions(+), 48 deletions(-)
Title: Data Structures and Algorithms for Relations
Diff between relations versions 0.5-6 dated 2010-02-10 and 0.5-7 dated 2010-03-08
Description: Data structures and algorithms for k-ary relations with
arbitrary domains, featuring relational algebra, predicate
functions, and fitters for consensus relations.
Author: Kurt Hornik and David Meyer
Maintainer: Kurt Hornik
DESCRIPTION | 10 +-
NEWS | 5 +
R/choice.R | 10 +-
R/consensus.R | 180 ++++++++++++++++++++++++++++---------------------
R/fitters.R | 74 +++++++++++---------
R/impute.R | 2
R/lsap.R | 72 +++++++++++++++++++
R/utilities.R | 20 +++++
inst/NEWS | 5 +
inst/doc/relations.pdf |binary
man/choice.Rd | 7 +
man/consensus.Rd | 57 ++++++++++-----
12 files changed, 300 insertions(+), 142 deletions(-)
Title: Collapsed Gibbs sampling methods for topic models.
Diff between lda versions 1.1 dated 2009-09-29 and 1.2 dated 2010-03-08
Description: This package implements latent Dirichlet allocation (LDA)
and related models. This includes (but is not limited to)
sLDA, corrLDA, and the mixed-membership stochastic blockmodel.
Inference for all of these models is implemented via a fast
collapsed Gibbs sampler writtten in C. Utility functions for
reading/writing data typically used in topic models, as well as
tools for examining posterior distributions are also included.
Author: Jonathan Chang
Maintainer: Jonathan Chang
DESCRIPTION | 8 +-
R/lda-internal.R | 8 +-
R/lda.collapsed.gibbs.sampler.R | 10 +--
R/mmsb.collapsed.gibbs.sampler.R | 4 -
R/rtm.collapsed.gibbs.sampler.R | 7 +-
R/rtm.em.R |only
R/slda.em.R | 7 +-
R/slda.predict.R |only
data/cora.cites.rda |binary
data/cora.documents.rda |binary
data/cora.titles.rda |binary
data/cora.vocab.rda |binary
data/poliblog.documents.rda |binary
data/poliblog.ratings.rda |binary
data/poliblog.vocab.rda |binary
data/sampson.rda |binary
demo/lda.R | 3 -
demo/mmsb.R | 109 ++++++++++++++++++-------------------
demo/rtm.R | 1
demo/slda.R | 30 ++++++++++
man/lda-package.Rd | 19 +++++-
man/lda.collapsed.gibbs.sampler.Rd | 27 ++++++---
man/lexicalize.Rd | 7 +-
man/predictive.distribution.Rd | 1
man/rtm.collapsed.gibbs.sampler.Rd | 32 ++++++++++
man/slda.predict.Rd |only
src/gibbs.c | 63 +++++++++++++++------
27 files changed, 226 insertions(+), 110 deletions(-)
Title: Demonstrate Animations in Statistics
Diff between animation versions 1.0-10 dated 2009-12-02 and 1.1-0 dated 2010-03-08
Description: This package consists of various functions for animations
in statistics, covering many areas such as probability theory,
mathematical statistics, multivariate statistics, nonparametric
statistics, sampling survey, linear models, time series,
computational statistics, data mining and machine learning.
These functions might be of help in teaching statistics and
data analysis.
Author: Yihui Xie
Maintainer: Yihui Xie
DESCRIPTION | 10 +++----
R/ani.start.R | 2 -
R/ani.stop.R | 4 +--
R/saveLatex.R | 10 ++++++-
R/saveMovie.R | 60 -----------------------------------------------
R/tidy.source.R | 5 ++-
demo/00Index | 4 +++
demo/Xmas.r |only
demo/recur.leaf.r |only
demo/recur.snow.r |only
demo/recur.tree.r |only
inst/NEWS | 51 ++++++++++++++++++++++++++++++++++-----
inst/js/animate.sty |only
inst/js/animfp.sty |only
man/animation-package.Rd | 4 +--
man/saveLatex.Rd | 13 +++++++---
man/saveMovie.Rd | 2 -
man/tidy.source.Rd | 6 +++-
18 files changed, 84 insertions(+), 87 deletions(-)