Author: Tom Price
Diff between waveclock versions 1.0-3.1 dated 2009-02-23 and 1.0-4 dated 2009-11-20
Title: Time-frequency analysis of cycling cell luminescence data
Description: waveclock is an R function designed to assess the period
and amplitude of cycling cell luminescence data. The function
reconstructs the modal frequencies from a continuous wavelet
decomposition of the luminescence data using the 'crazy
climbers' algorithm described in "Practical Time-Frequency
Analysis: Gabor and Wavelet Transforms with an Implementation
in S", by Rene Carmona, Wen L. Hwang and Bruno Torresani,
Academic Press, 1998.
CHANGES | 42 +++--
DESCRIPTION | 37 ++--
man/waveclock.Rd | 384 +++++++++++++++++++++++++-------------------------
man/waveclock.auto.Rd | 62 ++++----
4 files changed, 268 insertions(+), 257 deletions(-)
Author: Tom Price
Diff between titan versions 1.0-15.1 dated 2009-02-23 and 1.0-16 dated 2009-11-20
Title: Titration analysis for mass spectrometry data
Description: GUI to analyze mass spectrometric data on the relative
abundance of two substances from a titration series.
Changes | 19 +-
DESCRIPTION | 28 ++-
man/hypoxia.Rd | 64 ++++----
man/titan.Rd | 424 ++++++++++++++++++++++++++++-----------------------------
4 files changed, 270 insertions(+), 265 deletions(-)
Author: Edzer J. Pebesma
Diff between sp versions 0.9-44 dated 2009-09-18 and 0.9-47 dated 2009-11-20
Title: classes and methods for spatial data
Description: A package that provides classes and methods for spatial
data. The classes document where the spatial location
information resides, for 2D or 3D data. Utility functions are
provided, e.g. for plotting data as maps, spatial selection, as
well as methods for retrieving coordinates, for subsetting,
print, summary, etc.
.Rbuildindex.19095 |only
ChangeLog | 59
DESCRIPTION | 10
INDEX | 4
NAMESPACE | 12
R/Spatial-methods.R | 5
R/SpatialLines-methods.R | 4
R/SpatialLinesDataFrame-methods.R | 4
R/SpatialPoints-methods.R | 5
R/SpatialPointsDataFrame-methods.R | 8
R/SpatialPolygons-methods.R | 5
R/SpatialPolygonsDataFrame-methods.R | 11
R/chfids.R |only
R/flipSGDF.R |only
R/image.R | 6
R/spplot.R | 14
inst/CITATION | 12
inst/ChangeLog | 59
inst/doc/sp.pdf | 3711 +++++++++++++++++------------------
man/bubble.Rd | 2
man/coordinates.Rd | 3
man/flip.Rd |only
man/gridded-methods.Rd | 2
man/image.Rd | 3
man/spChFIDs-methods.Rd |only
man/stack.Rd | 5
rlabs |only
27 files changed, 2043 insertions(+), 1901 deletions(-)
Author: S original by Berwin A. Turlach
Diff between quadprog versions 1.4-11 dated 2007-07-13 and 1.4-12 dated 2009-11-20
Title: Functions to solve Quadratic Programming Problems.
Description: This package contains routines and documentation for
solving quadratic programming problems.
ChangeLog | 8 ++
DESCRIPTION | 14 ++--
R/quadprog.R | 2
README | 18 -----
man/solve.QP.Rd | 83 ++++++++++++-------------
man/solve.QP.compact.Rd | 159 ++++++++++++++++++++++++------------------------
6 files changed, 140 insertions(+), 144 deletions(-)
Author: Tom Price
Diff between cgh versions 1.0-6.1 dated 2009-02-23 and 1.0-7 dated 2009-11-20
Title: Microarray CGH analysis using the Smith-Waterman algorithm
Description: Functions to analyze microarray comparative genome
hybridization data using the Smith-Waterman algorithm
CHANGES | 54 ++++++++++++++++--------------
DESCRIPTION | 27 ++++++++-------
man/sw.perm.test.Rd | 91 +++++++++++++++++++++++++---------------------------
src/sw.c | 2 -
4 files changed, 90 insertions(+), 84 deletions(-)
Author: CHARLOTTE MAIA
Title: Random Time Variables
Description: An R package for conveniently representing, manipulating
and visualising realisations of random time variables. This
package is pending a major rewrite.
Diff between rtv versions 0.3.0 dated 2009-08-20 and 0.3.1 dated 2009-11-20
DESCRIPTION | 15 ++++++++------- inst/doc/rtv.pdf |binary inst/doc/rtv.rnw | 13 +++++++++---- 3 files changed, 17 insertions(+), 11 deletions(-)
Author: CHARLOTTE MAIA
Title: Random Return Variables
Description: An incomplete R package for working with random return
variables. The current package provides limited support for
formatting money. More features are planned for the future.
Diff between rrv versions 0.0.1 dated 2009-08-20 and 0.0.2 dated 2009-11-20
DESCRIPTION | 12 ++++++------ inst/doc/rrv.pdf |only inst/doc/rrv.rnw |only 3 files changed, 6 insertions(+), 6 deletions(-)
Author: Rajarshi Guha
Diff between rpubchem versions 1.4.2 dated 2009-02-08 and 1.4.3 dated 2009-11-20
Title: rpubchem - Interface to the PubChem Collection
Description: Access PubChem data (compounds, substance, assays).
Structural information is provided in the form of SMILES
strings. This package only provides access to a subset of the
precalculated data stored by PubChem. Bio-assay data can be
accessed to obtain descriptions as well as the actual data. It
is also possible to search for assay ID's by keyword. Currently
the main limitation is that only 1000 molecules can be
downloaded at a time from the PubChem servers
DESCRIPTION | 26 +++++++++++++++-----------
R/bioassayQueries.R |only
man/findaid.Rd | 2 +-
man/getadesc.Rd | 2 +-
man/getaidcid.Rd |only
man/getassay.Rd | 2 +-
man/getcid.Rd | 2 +-
man/getcsid.Rd | 2 +-
man/getsid.Rd | 2 +-
9 files changed, 21 insertions(+), 17 deletions(-)
Author: Hrishikesh D. Vinod
Diff between meboot versions 1.0-1 dated 2009-09-29 and 1.0-2 dated 2009-11-20
Title: Maximum Entropy Bootstrap for Time Series
Description: This package performs maximum entropy density based
dependent data bootstrap. An algorithm is provided to create a
population of time series (ensemble) without assuming
stationarity. The reference paper (Vinod, H.D., 2004) explains
how the algorithm satisfies the ergodic theorem and the central
limit theorem.
DESCRIPTION | 19 ++++++++++---------
NAMESPACE | 2 +-
R/checkConv.R |only
inst/doc/jss.bst |only
inst/doc/jss.cls |only
inst/doc/meboot.pdf |binary
man/checkConv.Rd |only
7 files changed, 11 insertions(+), 10 deletions(-)
Author: Korbinian Strimmer.
Title: Estimation and Control of (Local) False Discovery Rates
Description: This package allows to estimate both tail area-based false
discovery rates (Fdr) as well as local false discovery rates
(fdr) for a variety of null models (p-values, z-scores,
correlation coefficients, t-scores). The proportion of null
values and the parameters of the null distribution are
adaptively estimated from the data. In addition, the package
contains functions for non-parametric density estimation
(Grenander estimator), for monotone regression (isotonic
regression and antitonic regression with weights), for
computing the greatest convex minorant (GCM) and the least
concave majorant (LCM), and for the half-normal and correlation
distributions.
Diff between fdrtool versions 1.2.5 dated 2008-07-07 and 1.2.6 dated 2009-11-20
fdrtool-1.2.5/fdrtool/CHANGES |only fdrtool-1.2.6/fdrtool/DESCRIPTION | 31 ++++++++++++++++++------------- fdrtool-1.2.6/fdrtool/NEWS |only fdrtool-1.2.6/fdrtool/R/censored.fit.R | 20 ++++++++++---------- fdrtool-1.2.6/fdrtool/R/nullmodel.R | 8 ++++---- fdrtool-1.2.6/fdrtool/man/fdrtool.Rd | 12 +++++++++--- 6 files changed, 41 insertions(+), 30 deletions(-)
Author: Peter Solymos
Title: Data Cloning and MCMC Tools for Maximum Likelihood Methods
Description: Low level functions for implementing maximum likelihood
estimating procedures for complex models using data cloning and
Bayesian Markov chain Monte Carlo methods with support for
JAGS, WinBUGS and OpenBUGS.
Diff between dclone versions 0.9-0 dated 2009-11-05 and 1.0-0 dated 2009-11-20
DESCRIPTION | 15 ++++---- HISTORY | 7 ++- NAMESPACE | 4 +- R/as.mcmc.list.bugs.R | 11 +++++- R/bugs.fit.R | 7 +++ R/confint.mcmc.list.dc.R | 8 ++++ R/dc.fit.R | 82 +++++---------------------------------------- R/dctable.default.R | 34 +++++++++++++++++- R/extractdctable.R |only R/extractdctable.default.R |only R/jags.fit.R | 5 ++ R/plot.dctable.R | 45 ++++++++++++++++++------ R/write.jags.model.R | 1 R/zzz.R | 12 +----- data/ovenbird.rda |binary man/coef.mcmc.list.Rd | 2 - man/dc.fit.Rd | 55 ++++++------------------------ man/dclone-package.Rd | 10 +++++ man/dclone.Rd | 8 +++- man/dctable.Rd |only man/errlines.Rd | 2 - man/jags.fit.Rd | 8 ++-- man/mcmcapply.Rd | 10 +---- man/ovenbird.Rd | 6 ++- man/regmod.Rd | 32 +++++++++++++++++ man/write.jags.model.Rd | 7 ++- 26 files changed, 197 insertions(+), 174 deletions(-)