Author: Karl Kuschner, Qian Si and William Cooke, College of William
and Mary, Dept. of Physics, 2009
Title: The William and Mary Bayesian Analysis Tool
Description: The package contains all the functions used to get a
resulting Bayesian network.
Diff between rWMBAT versions 1.0 dated 2009-09-21 and 2.0 dated 2009-10-29
DESCRIPTION | 15 +++++++-------- man/BuildBayesNet.Rd | 2 +- man/ChooseMetaVars.Rd | 2 +- man/CondMutualInfo.Rd | 6 +++--- man/DoTheMath.Rd | 2 +- man/In.Rd | 2 +- man/InitialProcessing.Rd | 2 +- man/MutualInfo.Rd | 4 ++-- man/Options.Rd | 2 +- man/Repmat.Rd | 2 +- man/WMBAT.Rd | 2 +- man/adjmat.Rd | 2 +- man/adjmat1.Rd | 2 +- man/adjmat2.Rd | 2 +- man/alignedPeakList.Rd | 10 ++++++++-- man/automi.Rd | 2 +- man/drop.Rd | 2 +- man/findmutualinfos.Rd | 2 +- man/getarcs.Rd | 2 +- man/looklr.Rd | 6 +++--- man/miCalc.Rd | 4 ++-- man/mi_vc.Rd | 2 +- man/mi_vc_v.Rd | 2 +- man/nfold.Rd | 2 +- man/rWMBAT-package.Rd | 4 ++-- man/repeats.Rd | 2 +- man/tofListMetaData.Rd | 2 +- 27 files changed, 47 insertions(+), 42 deletions(-)
Author: Romain Francois
Title: SciViews GUI API - Tools (wrapper for packages tools and
codetools)
Description: Set of tools aimed at wrapping some of the functionalities
of the packages tools, utils and codetools into a nicer format
so that an IDE can use them
Diff between svTools versions 0.0-11 dated 2009-10-11 and 0.0-12 dated 2009-10-29
DESCRIPTION | 13 +++++++------ NAMESPACE | 5 ++++- NEWS | 5 ++++- R/sidekick.R | 37 ++++++++++++++++++++++--------------- man/sidekick.Rd | 23 +++++++++++++---------- 5 files changed, 50 insertions(+), 33 deletions(-)
Author: Philippe Grosjean, Matthew Dowle
Title: SciViews GUI API - R Socket Server
Description: Implements a simple socket server allowing to connect GUI
clients to R
Diff between svSocket versions 0.9-43 dated 2009-01-23 and 0.9-48 dated 2009-10-29
svSocket-0.9-43/svSocket/testCLI/testCLI.r |only svSocket-0.9-43/svSocket/testCLI/testCLIcmd.r |only svSocket-0.9-48/svSocket/DESCRIPTION | 30 svSocket-0.9-48/svSocket/NAMESPACE | 8 svSocket-0.9-48/svSocket/NEWS | 43 + svSocket-0.9-48/svSocket/R/closeSocketClients.R | 21 svSocket-0.9-48/svSocket/R/evalServer.R |only svSocket-0.9-48/svSocket/R/getSocket.R | 115 +-- svSocket-0.9-48/svSocket/R/parSocket.R | 89 +- svSocket-0.9-48/svSocket/R/processSocket.R | 265 ++++---- svSocket-0.9-48/svSocket/R/sendSocketClients.R | 33 - svSocket-0.9-48/svSocket/R/startSocketServer.R | 456 ++++++++------- svSocket-0.9-48/svSocket/R/stopSocketServer.R | 89 +- svSocket-0.9-48/svSocket/R/svSocket-Internal.R | 39 - svSocket-0.9-48/svSocket/R/svTaskCallbackManager.R |only svSocket-0.9-48/svSocket/TODO | 72 +- svSocket-0.9-48/svSocket/inst/CITATION | 10 svSocket-0.9-48/svSocket/inst/etc/SimpleClient.Tcl | 9 svSocket-0.9-48/svSocket/inst/etc/SimpleClientSecure.Tcl |only svSocket-0.9-48/svSocket/man/closeSocketClients.Rd | 2 svSocket-0.9-48/svSocket/man/evalServer.Rd |only svSocket-0.9-48/svSocket/man/processSocket.Rd | 28 svSocket-0.9-48/svSocket/man/startSocketServer.Rd | 9 svSocket-0.9-48/svSocket/man/svTaskCallbackManager.Rd |only svSocket-0.9-48/svSocket/testCLI/testCLI.R |only svSocket-0.9-48/svSocket/testCLI/testCLIcmd.R |only 26 files changed, 735 insertions(+), 583 deletions(-)
Author: Philippe Grosjean, Romain Francois & Kamil Barton
Title: SciViews GUI API - Miscellaneous functions
Description: Supporting functions for the GUI API (various utilitary
functions)
Diff between svMisc versions 0.9-48 dated 2009-06-28 and 0.9-56 dated 2009-10-29
DESCRIPTION | 14 +- NAMESPACE | 1 NEWS | 55 +++++++++ R/Args.R | 2 R/CallTip.R | 11 + R/Complete.R | 316 ++++++++++++++++++++++++++++++++++++++++++++++++---- R/CompletePlus.R | 20 +++ R/descFun.R | 100 +++++++++++++++- R/isHelp.R | 12 + TODO | 4 inst/CITATION | 10 - man/Complete.Rd | 84 ++++++++----- man/CompletePlus.Rd | 1 man/isHelp.Rd | 2 man/progress.Rd | 2 15 files changed, 549 insertions(+), 85 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - IDE and code editor functions
Description: Function for the GUI API to interact with external
IDE/code editors
Diff between svIDE versions 0.9-45 dated 2009-01-23 and 0.9-47 dated 2009-10-29
svIDE-0.9-45/svIDE/R/TinnR.R |only svIDE-0.9-45/svIDE/man/TinnR.Rd |only svIDE-0.9-47/svIDE/DESCRIPTION | 31 +++++++++++++++++++------------ svIDE-0.9-47/svIDE/NAMESPACE | 4 +--- svIDE-0.9-47/svIDE/NEWS | 19 +++++++++++++++++++ svIDE-0.9-47/svIDE/R/Source.R | 19 ++++++++++--------- svIDE-0.9-47/svIDE/R/Startup.R | 11 ++++------- svIDE-0.9-47/svIDE/R/createCallTipFile.R | 5 +++-- svIDE-0.9-47/svIDE/R/createSyntaxFile.R | 17 +++++++++-------- svIDE-0.9-47/svIDE/R/getFunctions.R | 3 ++- svIDE-0.9-47/svIDE/R/getKeywords.R | 3 ++- svIDE-0.9-47/svIDE/R/guiDDEInstall.R | 19 +++++++++++-------- svIDE-0.9-47/svIDE/inst/CITATION | 10 +++++----- svIDE-0.9-47/svIDE/man/guiDDEInstall.Rd | 4 +--- 14 files changed, 86 insertions(+), 59 deletions(-)
Author: Philippe Grosjean
Title: SciViews GUI API - Dialog boxes
Description: Rapidly construct dialog boxes for your GUI, including an
automatic function assistant
Diff between svDialogs versions 0.9-41 dated 2009-10-11 and 0.9-42 dated 2009-10-29
DESCRIPTION | 10 +++++----- NEWS | 5 +++++ R/flexibleDlg.R | 14 ++++++++++++-- 3 files changed, 22 insertions(+), 7 deletions(-)
Author: Daniel P Gaile
Diff between iGenomicViewer versions 2.4.2 dated 2009-09-18 and 2.4.4 dated 2009-10-29
More information about iGenomicViewer at CRAN
Title: Tool for sending interactive bioinformatic heatmaps with
tool-tip content.
Description: A tool for visualizing data
DESCRIPTION | 8 +++---
R/adfWrapper.R | 57 +++++++++++++++++++++++++------------------
R/dfWrapper.R | 58 +++++++++++++++++++++++---------------------
R/makeGGV.R | 24 +++++++++---------
R/mappingObj.R | 6 ++--
R/marrayWrapper.R | 55 ++++++++++++++++++++++-------------------
inst/doc/iGGV.pdf |binary
inst/doc/iGenomicViewer.Rnw | 8 ++----
inst/doc/iGenomicViewer.pdf |binary
man/makeGGV.Rd | 3 ++
man/mappingObj.Rd | 45 +++++++++++++++++++---------------
11 files changed, 145 insertions(+), 119 deletions(-)
Permanent link
Author: Rajarshi Guha
Diff between rcdklibs versions 1.2.1 dated 2009-02-23 and 1.2.2 dated 2009-10-29
Title: rcdklib - CDK libraries packaged for R
Description: This package provides the CDK libraries for use in the R
environment. Given the size of the library itself, this package
is not expected to change very frequently. To make use of the
CDK within R, it is suggested that you use the rcdk package.
Note that it is possible to directly interact with the CDK
using rJava. However rcdk exposes functionality in a more
idiomatic way
DESCRIPTION | 23 +++++++++++++----------
inst/cont/cdk.jar |binary
2 files changed, 13 insertions(+), 10 deletions(-)
Author: Ryan T. Moore
Diff between muRL versions 0.1-3 dated 2009-10-18 and 0.1-4 dated 2009-10-29
Title: Mailmerge using R, LaTeX, and the Web
Description: Provides mailmerge methods for reading spreadsheets of
addresses and other relevant information to create standardized
but customizable letters. Provides a method for mapping US ZIP
codes, including those of letter recipients. Provides a method
for parsing and processing html code from online job postings
of the American Political Science Association.
CHANGELOG | 7 +++++++
DESCRIPTION | 8 ++++----
R/write.murl.R | 8 ++++----
demo/write.murl.R | 24 +++++++++++++++---------
man/murl-package.Rd | 4 ++--
man/write.murl.Rd | 10 +++++-----
6 files changed, 37 insertions(+), 24 deletions(-)
Author: Ryan T. Moore
Title: Block, assign, and diagnose potential interference in randomized
experiments
Description: Blocks units into experimental blocks, with one unit per
treatment condition, by creating a measure of multivariate
distance between all possible pairs of units. Maximum,
minimum, or an allowable range of differences between units on
one variable can be set. Randomly assign units to treatment
conditions. Diagnose potential interference between units
assigned to different treatment conditions. Write outputs to
.tex and .csv files.
Diff between blockTools versions 0.3 dated 2009-04-30 and 0.4-1 dated 2009-10-29
CHANGELOG | 6 + DESCRIPTION | 10 - R/block.R | 231 +++++++++++++++++++++++++--------------------- man/assignment.Rd | 19 +-- man/block.Rd | 64 +++++++++--- man/blockTools-package.Rd | 8 - man/diagnose.Rd | 2 man/outCSV.Rd | 8 - man/outTeX.Rd | 12 +- 9 files changed, 211 insertions(+), 149 deletions(-)
Author: Piotr Romanski
Title: Selecting attributes
Description: This package provides functions for selecting attributes
from a given dataset. Attribute subset selection is the process
of identifying and removing as much of the irrevelant and
redundant information as possible.
Diff between FSelector versions 0.17 dated 2009-05-18 and 0.18 dated 2009-10-29
DESCRIPTION | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-)
Author: Matt Taddy
Diff between Bmix versions 0.1 dated 2009-10-27 and 0.2 dated 2009-10-29
Title: Bayesian Sampling for Stick-breaking Mixtures
Description: This is a bare-bones implementation of sampling algorithms
for a variety of Bayesian stick-breaking (marginally DP)
mixture models, including particle learning and Gibbs sampling
for static DP mixtures, particle learning for dynamic BAR
stick-breaking, and DP mixture regression. The software is
designed to be easy to customize to suit different situations
and for experimentation with stick-breaking models. Since
particles are repeatedly copied, it is not an especially
efficient implementation.
DESCRIPTION | 25 ++++++++++++++-----------
demo/DPreg.R | 17 +++++++++++------
demo/bar1D.R | 15 ++++++++-------
demo/bar2D.R | 16 +++++++++-------
man/Bmix-package.Rd | 2 +-
src/latools.h | 2 +-
src/rvtools.h | 2 +-
7 files changed, 45 insertions(+), 34 deletions(-)
Author: Gopal, V. and Li, Z. and Casella, G.
Title: Bayesian Association Model for Genomic Data with Missing
Covariates
Description: This package fits a linear mixed model where the
covariates for the random effects have missing values.
Diff between BAMD versions 3.1 dated 2009-10-18 and 3.3 dated 2009-10-29
DESCRIPTION | 8 ++++---- R/gibbsSampler.R | 6 ++++-- R/variableSelector.R | 6 +++++- src/SNP.h | 7 ------- src/computeLoop.c | 17 +++++++++++++++-- src/generate_SNP.c | 49 +------------------------------------------------ src/gibbs.c | 16 ++++++---------- src/gibbs.h | 2 +- 8 files changed, 36 insertions(+), 75 deletions(-)