Title: Seamless R and C++ Integration
Description: The Rcpp package provides a C++ library which facilitates
the integration of R and C++.
R data types (SEXP) are matched to C++ objects in a class hierarchy.
All R types are supported (vectors, functions, environment, etc
...) and each type is mapped to a dedicated class. For
example, numeric vectors are represented as instances of the
Rcpp::NumericVector class, environments are represented as
instances of Rcpp::Environment, functions are represented as
Rcpp::Function, etc ... The "Rcpp-introduction" vignette
provides a good entry point to Rcpp.
Conversion from C++ to R and back is driven by the templates Rcpp::wrap
and Rcpp::as which are highly flexible and extensible, as
documented in the "Rcpp-extending" vignette.
Rcpp also provides Rcpp modules, a framework that allows exposing C++
functions and classes to the R level. The "Rcpp-modules"
vignette details the current set of features of Rcpp-modules.
Rcpp includes a concept called Rcpp sugar that brings many R functions
into C++. Sugar takes advantage of lazy evaluation and
expression templates to achieve great performance while
exposing a syntax that is much nicer to use than the equivalent
low-level loop code. The "Rcpp-sugar" vignette gives an
overview of the feature.
Several examples are included, and 753 unit tests in 335 unit test
functions provide additional usage examples.
An earlier version of Rcpp, containing what we now call the 'classic
Rcpp API' was written during 2005 and 2006 by Dominick Samperi.
This code has been factored out of Rcpp into the package
RcppClassic and it is still available for code relying on this
interface. New development should use this package instead.
Author: Dirk Eddelbuettel and Romain Francois, with contributions by
Douglas Bates and John Chambers
Maintainer: Dirk Eddelbuettel and Romain Francois
Diff between Rcpp versions 0.9.2 dated 2011-02-24 and 0.9.3 dated 2011-04-05
ChangeLog | 60 DESCRIPTION | 8 R/00_classes.R | 5 R/01_show.R | 44 R/Module.R | 1 cleanup | 2 inst/NEWS | 23 inst/doc/Makefile | 74 inst/doc/Rcpp-FAQ.pdf |binary inst/doc/Rcpp-FAQ/Rcpp-FAQ.Rnw | 2 inst/doc/Rcpp-extending.pdf |binary inst/doc/Rcpp-introduction.Rnw | 1355 +++++++------ inst/doc/Rcpp-introduction.pdf |binary inst/doc/Rcpp-modules.pdf |binary inst/doc/Rcpp-package.pdf |binary inst/doc/Rcpp-quickref.pdf |binary inst/doc/Rcpp-sugar.pdf |binary inst/doc/Rcpp-unitTests.pdf |binary inst/doc/Rcpp.bib | 99 inst/doc/jss.bst |only inst/doc/unitTests-results/Rcpp-unitTests.html | 18 inst/doc/unitTests-results/Rcpp-unitTests.txt | 46 inst/include/Rcpp/Module.h | 40 inst/include/Rcpp/Vector.h | 6 inst/include/Rcpp/config.h | 2 inst/include/Rcpp/grow.h | 91 inst/include/Rcpp/module/Module_generated_ctor_signature.h | 18 inst/include/Rcpp/vector/RangeIndexer.h | 5 inst/include/RcppCommon.h | 6 inst/unitTests/runit.Module.R | 19 inst/unitTests/testRcppModule/src/stdVector.cpp | 7 src/exceptions.cpp | 2 32 files changed, 1167 insertions(+), 766 deletions(-)
Title: Wrapper to spatialite functions
Description: Provides bindings to spatialite functionalities. Through
this bindings (due to OGC specifications) numerous spatial
functions can be performed by simple SQL statements.
Author: Norbert Solymosi
Maintainer: Norbert Solymosi
Diff between SQLiteMap versions 0.3 dated 2008-07-29 and 0.5 dated 2011-04-05
SQLiteMap-0.3/SQLiteMap/inst/sqlimaps/sids.db3 |only SQLiteMap-0.3/SQLiteMap/man/sqli2map.Rd |only SQLiteMap-0.5/SQLiteMap/DESCRIPTION | 16 SQLiteMap-0.5/SQLiteMap/NAMESPACE | 3 SQLiteMap-0.5/SQLiteMap/R/SQLiteMap.R | 1192 +++++++++------------- SQLiteMap-0.5/SQLiteMap/configure |only SQLiteMap-0.5/SQLiteMap/configure.ac |only SQLiteMap-0.5/SQLiteMap/inst/sqlimaps/maps.sqlite |only SQLiteMap-0.5/SQLiteMap/man/SQLiteMap-package.Rd | 59 - SQLiteMap-0.5/SQLiteMap/man/spatialite.init.Rd |only SQLiteMap-0.5/SQLiteMap/man/sqli.dump.Rd | 39 SQLiteMap-0.5/SQLiteMap/man/sqli2sp.Rd | 36 SQLiteMap-0.5/SQLiteMap/src |only 13 files changed, 600 insertions(+), 745 deletions(-)
Title: Some Multiple Testing Procedures
Description: It's a collection of functions for Multiplicty Correction
and Multiple Testing.
Author: livio finos
Maintainer:
Diff between someMTP versions 1.1 dated 2010-12-19 and 1.2 dated 2011-04-05
DESCRIPTION | 9 +++++---- NAMESPACE | 6 ++++++ R/LSDtest.R | 18 +++++++++++++----- R/anRpackage |only R/fdrOrd.r |only R/someObject.R |only man/OrNULL-class.Rd |only man/draw.Rd |only man/fdrOrd.Rd |only man/lsd-class.Rd |only man/lsdtest.Rd | 14 ++++++++++---- man/someMTP-class.Rd |only man/someMTP-package.Rd | 8 +++++--- 13 files changed, 39 insertions(+), 16 deletions(-)
Title: QT Knowledge Management System
Description: This package performs QT-RR, QTc-time, and
concentration-QTc analyses.
Author: Christoffer W. Tornoe
Maintainer: FDA Pharmacometrics
Diff between QT versions 1.2 dated 2010-10-27 and 1.3 dated 2011-04-05
QT-1.2/QT/INDEX |only QT-1.2/QT/data/filelist |only QT-1.2/QT/tests |only QT-1.3/QT/DESCRIPTION | 8 ++++---- QT-1.3/QT/R/QT.R | 11 ++++++++--- QT-1.3/QT/man/QT.Rd | 2 +- QT-1.3/QT/man/qtpk.Rd | 40 ++++------------------------------------ 7 files changed, 17 insertions(+), 44 deletions(-)
Title: Identification and Quantification of Metabolites by Using 1D 1H
NMR FID
Description: Critical to metabolomics is the unambiguous identification
and absolute quantification of metabolites. One-dimensional
(1D) proton (1H) NMR has formed the bedrock of metabolomics
studies to date. Automated and high throughput identification
and quantification of metabolites is a big challenge for
One-dimensional (1D) proton (1H) NMR. This package present a
new automated technique based on Message Passing Interface
(MPI), relaxation algorithm, pattern identification, Madison
Metabolomics Consortium Database (MMCD), and 1D 1H NMR free
induction decay (FID), for the unambiguous identification and
absolute quantification of targeted metabolites.
Author: XuSong
Maintainer: Xu Song
Diff between IQMNMR versions 1.0.1 dated 2011-04-04 and 1.0.2 dated 2011-04-05
DESCRIPTION | 6 +++--- R/identify_quantify.R | 18 ++++++++++-------- 2 files changed, 13 insertions(+), 11 deletions(-)
Title: classes and methods for spatio-temporal data
Description: A package with classes and methods for spatio-temporal
data.
Author: Edzer Pebesma
Maintainer: Edzer Pebesma
Diff between spacetime versions 0.2-3 dated 2011-03-18 and 0.2-4 dated 2011-04-05
spacetime-0.2-3/spacetime/inst/doc/spacetime.R |only spacetime-0.2-4/spacetime/DESCRIPTION | 8 ++++---- spacetime-0.2-4/spacetime/inst/doc/spacetime.Rnw | 4 ++-- spacetime-0.2-4/spacetime/inst/doc/spacetime.pdf |binary spacetime-0.2-4/spacetime/tests/traj.R | 4 ++-- spacetime-0.2-4/spacetime/tests/traj.Rout.save | 4 ++-- 6 files changed, 10 insertions(+), 10 deletions(-)
Title: Functions and datasets for books by Julian Faraway.
Description: Books are "Practical Regression and ANOVA in R" on CRAN,
"Linear Models with R" published in August 2004 by CRC press
and "Extending the Linear Model with R" published by CRC press
in December 2005.
Author: Julian Faraway
Maintainer: Julian Faraway
Diff between faraway versions 1.0.4 dated 2009-01-28 and 1.0.5 dated 2011-04-05
DESCRIPTION | 17 +++++++++++------ data/aatemp.rda |binary data/abrasion.rda |binary data/aflatoxin.rda |binary data/africa.rda |binary data/alfalfa.rda |binary data/amlxray.rda |binary data/babyfood.rda |binary data/beetle.rda |binary data/bliss.rda |binary data/breaking.rda |binary data/broccoli.rda |binary data/cathedral.rda |binary data/chicago.rda |binary data/chiczip.rda |binary data/chmiss.rda |binary data/choccake.rda |binary data/chredlin.rda |binary data/clot.rda |binary data/cmob.rda |binary data/cns.rda |binary data/coagulation.rda |binary data/composite.rda |binary data/cornnit.rda |binary data/corrosion.rda |binary data/cpd.rda |binary data/ctsib.rda |binary data/death.rda |binary data/debt.rda |binary data/diabetes.rda |binary data/dicentric.rda |binary data/divusa.rda |binary data/drugpsy.rda |binary data/dvisits.rda |binary data/eco.rda |binary data/eggprod.rda |binary data/eggs.rda |binary data/epilepsy.rda |binary data/esdcomp.rda |binary data/exa.rda |binary data/exb.rda |binary data/eyegrade.rda |binary data/fat.rda |binary data/femsmoke.rda |binary data/fpe.rda |binary data/fruitfly.rda |binary data/gala.rda |binary data/gavote.rda |binary data/haireye.rda |binary data/happy.rda |binary data/hormone.rda |binary data/hprice.rda |binary data/hsb.rda |binary data/infmort.rda |binary data/irrigation.rda |binary data/jsp.rda |binary data/kanga.rda |binary data/lawn.rda |binary data/leafblotch.rda |binary data/mammalsleep.rda |binary data/meatspec.rda |binary data/melanoma.rda |binary data/motorins.rda |binary data/neighbor.rda |binary data/nels88.rda |binary data/nepali.rda |binary data/nes96.rda |binary data/oatvar.rda |binary data/odor.rda |binary data/ohio.rda |binary data/orings.rda |binary data/ozone.rda |binary data/parstum.rda |binary data/peanut.rda |binary data/penicillin.rda |binary data/pima.rda |binary data/pipeline.rda |binary data/pneumo.rda |binary data/potuse.rda |binary data/prostate.rda |binary data/psid.rda |binary data/pulp.rda |binary data/pvc.rda |binary data/rabbit.rda |binary data/ratdrink.rda |binary data/rats.rda |binary data/resceram.rda |binary data/salmonella.rda |binary data/sat.rda |binary data/savings.rda |binary data/seatpos.rda |binary data/semicond.rda |binary data/sexab.rda |binary data/sexfun.rda |binary data/solder.rda |binary data/sono.rda |binary data/soybean.rda |binary data/spector.rda |binary data/speedo.rda |binary data/star.rda |binary data/stat500.rda |binary data/strongx.rda |binary data/suicide.rda |binary data/teengamb.rda |binary data/toenail.rda |binary data/troutegg.rda |binary data/truck.rda |binary data/turtle.rda |binary data/twins.rda |binary data/uncviet.rda |binary data/uswages.rda |binary data/vision.rda |binary data/wafer.rda |binary data/wavesolder.rda |binary data/wbca.rda |binary data/weldstrength.rda |binary data/wheat.rda |binary man/Cpplot.Rd | 4 ---- 118 files changed, 11 insertions(+), 10 deletions(-)
Title: The ScottKnott Clustering Algoritm
Description: Division of an ANOVA experiment treatment means into
homogeneous distinct groups using the clustering method of
Scott & Knott
Author: Enio Jelihovschi
Maintainer: Enio Jelihovschi
Diff between ScottKnott versions 1.1.0 dated 2010-04-03 and 1.1-2 dated 2011-04-05
ScottKnott-1.1-2/ScottKnott/ChangeLog | 18 + ScottKnott-1.1-2/ScottKnott/DESCRIPTION | 8 ScottKnott-1.1-2/ScottKnott/R/SK.nest.aov.R | 4 ScottKnott-1.1-2/ScottKnott/R/SK.nest.aovlist.R | 4 ScottKnott-1.1-2/ScottKnott/R/summary.SK.nest.R | 40 ++- ScottKnott-1.1-2/ScottKnott/data/SPE.rda |binary ScottKnott-1.1-2/ScottKnott/data/SSPE.rda |binary ScottKnott-1.1-2/ScottKnott/data/sorghum.rda |only ScottKnott-1.1-2/ScottKnott/demo/00Index | 11 ScottKnott-1.1-2/ScottKnott/demo/CRD.R | 39 +-- ScottKnott-1.1-2/ScottKnott/demo/FE.R | 158 ++++++------- ScottKnott-1.1-2/ScottKnott/demo/LSD.R | 14 - ScottKnott-1.1-2/ScottKnott/demo/RCBD.R | 12 - ScottKnott-1.1-2/ScottKnott/demo/SPE.r | 77 +++--- ScottKnott-1.1-2/ScottKnott/demo/SSPE.r | 106 ++++---- ScottKnott-1.1-2/ScottKnott/man/CRD1.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/CRD2.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/FE.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/LS.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/MaxValue.Rd | 8 ScottKnott-1.1-2/ScottKnott/man/RCBD.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/SK.Rd | 45 ++- ScottKnott-1.1-2/ScottKnott/man/SK.nest.Rd | 38 +-- ScottKnott-1.1-2/ScottKnott/man/SPE.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/SSPE.Rd | 1 ScottKnott-1.1-2/ScottKnott/man/ScottKnott-package.Rd | 215 +++++++++--------- ScottKnott-1.1-2/ScottKnott/man/plot.SK.Rd | 19 - ScottKnott-1.1-2/ScottKnott/man/sorghum.Rd |only ScottKnott-1.1-2/ScottKnott/man/summary.Rd | 89 ++++--- ScottKnott-1.1-2/ScottKnott/scripts |only ScottKnott-1.1.0/ScottKnott/CITATION |only 31 files changed, 506 insertions(+), 406 deletions(-)
Title: Maximum Likelihood Conjoint Measurement
Description: Conjoint measurement is a psychophysical procedure in
which stimulus pairs are presented that vary along 2 or more
dimensions and the observer is required to compare the stimuli
along one of them. This package contains functions to estimate
the contribution of the n scales to the judgment by a maximum
likelihood method under several hypotheses of how the
perceptual dimensions interact.
Author: Kenneth Knoblauch and Laurence T. Maloney
Maintainer: Ken Knoblauch
Diff between MLCM versions 0.0-7 dated 2009-11-23 and 0.0-8 dated 2011-04-05
DESCRIPTION | 8 ++++---- R/make.wide.R | 4 ++-- R/mlcm.default.R | 13 +++++++++---- inst/NEWS | 13 +++++++++++++ 4 files changed, 28 insertions(+), 10 deletions(-)
Title: Chemical Thermodynamics and Activity Diagrams
Description: This package includes functions and data sets to support
chemical thermodynamic modeling in biochemistry and
low-temperature geochemistry. The features include calculation
of the standard molal thermodynamic properties and chemical
affinities of reactions involving minerals and/or biomolecules;
a database of thermodynamic properties of aqueous, crystalline
and gaseous species; amino acid group additivity for the
standard molal thermodynamic properties of neutral and ionized
proteins; use of the revised Helgeson-Kirkham-Flowers equations
of state for aqueous species; construction of equilibrium
activity diagrams as a function of temperature, pressure, and
chemical activities or fugacities of basis species.
Author: Jeffrey M. Dick
Maintainer: Jeffrey M. Dick
Diff between CHNOSZ versions 0.9-4 dated 2011-02-23 and 0.9-5 dated 2011-04-05
CHNOSZ-0.9-4/CHNOSZ/data/AA03.csv |only CHNOSZ-0.9-4/CHNOSZ/data/ECO.csv |only CHNOSZ-0.9-4/CHNOSZ/data/HUM.csv |only CHNOSZ-0.9-4/CHNOSZ/data/ISR+08.csv |only CHNOSZ-0.9-4/CHNOSZ/data/OBIGT-2.csv |only CHNOSZ-0.9-4/CHNOSZ/data/OBIGT.csv |only CHNOSZ-0.9-4/CHNOSZ/data/PM90.csv |only CHNOSZ-0.9-4/CHNOSZ/data/RH95.csv |only CHNOSZ-0.9-4/CHNOSZ/data/RT71.csv |only CHNOSZ-0.9-4/CHNOSZ/data/SGD.csv |only CHNOSZ-0.9-4/CHNOSZ/data/SOJSH.csv |only CHNOSZ-0.9-4/CHNOSZ/data/buffer.csv |only CHNOSZ-0.9-4/CHNOSZ/data/check.csv |only CHNOSZ-0.9-4/CHNOSZ/data/element.csv |only CHNOSZ-0.9-4/CHNOSZ/data/groups.csv |only CHNOSZ-0.9-4/CHNOSZ/data/opt.csv |only CHNOSZ-0.9-4/CHNOSZ/data/protein.csv |only CHNOSZ-0.9-4/CHNOSZ/data/protein_refseq.csv |only CHNOSZ-0.9-4/CHNOSZ/data/source.csv |only CHNOSZ-0.9-4/CHNOSZ/data/stress.csv |only CHNOSZ-0.9-4/CHNOSZ/data/taxid.phylum.csv |only CHNOSZ-0.9-4/CHNOSZ/data/thermo.R |only CHNOSZ-0.9-4/CHNOSZ/data/yeastgfp.csv |only CHNOSZ-0.9-5/CHNOSZ/DESCRIPTION | 8 CHNOSZ-0.9-5/CHNOSZ/R/anim.TCA.R | 2 CHNOSZ-0.9-5/CHNOSZ/R/util.data.R | 2 CHNOSZ-0.9-5/CHNOSZ/data/ECO.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/HUM.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/OBIGT.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/SGD.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/buffer.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/check.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/datalist |only CHNOSZ-0.9-5/CHNOSZ/data/element.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/groups.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/opt.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/protein.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/source.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/stress.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/data/thermo.rda |only CHNOSZ-0.9-5/CHNOSZ/data/yeastgfp.csv.gz |only CHNOSZ-0.9-5/CHNOSZ/inst/NEWS | 5 CHNOSZ-0.9-5/CHNOSZ/inst/doc/CHNOSZ-formation.pdf |binary CHNOSZ-0.9-5/CHNOSZ/inst/doc/CHNOSZ-formation.tex |only CHNOSZ-0.9-5/CHNOSZ/inst/doc/CHNOSZ-intro.pdf | 4200 +++++++++++--------- CHNOSZ-0.9-5/CHNOSZ/inst/doc/CHNOSZ-intro.tex |only CHNOSZ-0.9-5/CHNOSZ/inst/doc/CHNOSZ-temperature.pdf |binary CHNOSZ-0.9-5/CHNOSZ/inst/doc/CHNOSZ-temperature.tex |only CHNOSZ-0.9-5/CHNOSZ/inst/doc/Makefile | 40 CHNOSZ-0.9-5/CHNOSZ/inst/extdata/AA03.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/ISR+08.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/OBIGT-2.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/PM90.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/RH95.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/RT71.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/SOJSH.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/protein_refseq.csv |only CHNOSZ-0.9-5/CHNOSZ/inst/extdata/taxid.phylum.csv |only CHNOSZ-0.9-5/CHNOSZ/man/data.Rd | 34 CHNOSZ-0.9-5/CHNOSZ/man/get.expr.Rd | 2 CHNOSZ-0.9-5/CHNOSZ/man/ionize.Rd | 4 CHNOSZ-0.9-5/CHNOSZ/man/subcrt.Rd | 2 CHNOSZ-0.9-5/CHNOSZ/man/util.blast.Rd | 2 CHNOSZ-0.9-5/CHNOSZ/man/util.data.Rd | 5 CHNOSZ-0.9-5/CHNOSZ/man/util.formula.Rd | 2 CHNOSZ-0.9-5/CHNOSZ/man/water.Rd | 2 66 files changed, 2536 insertions(+), 1774 deletions(-)
Title: Tools for splitting, applying and combining data
Description: plyr is a set of tools that solves a common set of
problems: you need to break a big problem down into manageable
pieces, operate on each pieces and then put all the pieces back
together. For example, you might want to fit a model to each
spatial location or time point in your study, summarise data by
panels or collapse high-dimensional arrays to simpler summary
statistics. The development of plyr has been generously
supported by BD (Becton Dickinson).
Author: Hadley Wickham
Maintainer: Hadley Wickham
Diff between plyr versions 1.4 dated 2011-01-04 and 1.4.1 dated 2011-04-05
plyr-1.4.1/plyr/DESCRIPTION | 6 +++--- plyr-1.4.1/plyr/NEWS | 5 +++++ plyr-1.4.1/plyr/R/ply-array.r | 9 +++++++++ plyr-1.4.1/plyr/R/ply-data-frame.r | 9 +++++++++ plyr-1.4.1/plyr/R/ply-list.r | 9 +++++++++ plyr-1.4.1/plyr/R/ply-mapply.r | 12 ++++++++++++ plyr-1.4.1/plyr/R/ply-null.r | 9 +++++++++ plyr-1.4.1/plyr/R/ply-replicate.r | 12 ++++++++++++ plyr-1.4.1/plyr/inst/CITATION |only plyr-1.4.1/plyr/man/a_ply.Rd | 3 +++ plyr-1.4.1/plyr/man/aaply.Rd | 3 +++ plyr-1.4.1/plyr/man/adply.Rd | 3 +++ plyr-1.4.1/plyr/man/alply.Rd | 3 +++ plyr-1.4.1/plyr/man/d_ply.Rd | 3 +++ plyr-1.4.1/plyr/man/daply.Rd | 3 +++ plyr-1.4.1/plyr/man/ddply.Rd | 3 +++ plyr-1.4.1/plyr/man/dlply.Rd | 3 +++ plyr-1.4.1/plyr/man/l_ply.Rd | 3 +++ plyr-1.4.1/plyr/man/laply.Rd | 3 +++ plyr-1.4.1/plyr/man/ldply.Rd | 3 +++ plyr-1.4.1/plyr/man/llply.Rd | 3 +++ plyr-1.4.1/plyr/man/m_ply.Rd | 3 +++ plyr-1.4.1/plyr/man/maply.Rd | 3 +++ plyr-1.4.1/plyr/man/mdply.Rd | 3 +++ plyr-1.4.1/plyr/man/mlply.Rd | 3 +++ plyr-1.4.1/plyr/man/r_ply.Rd | 3 +++ plyr-1.4.1/plyr/man/raply.Rd | 3 +++ plyr-1.4.1/plyr/man/rdply.Rd | 3 +++ plyr-1.4.1/plyr/man/rlply.Rd | 3 +++ plyr-1.4/plyr/inst/doc |only 30 files changed, 128 insertions(+), 3 deletions(-)
Title: Make dealing with dates a little easier
Description: Lubridate makes it easier to work with dates and times by
providing functions to identify and parse date-time data,
extract and modify components of a date-time (years, months,
days, hours, minutes, and seconds), perform accurate math on
date-times, handle time zones and Daylight Savings Time.
Lubridate has a consistent, memorable syntax, that makes
working with dates fun instead of frustrating.
Author: Garrett Grolemund
Maintainer: Garrett Grolemund
Diff between lubridate versions 0.2.3 dated 2010-12-09 and 0.2.4 dated 2011-04-05
lubridate-0.2.3/lubridate/inst/doc |only lubridate-0.2.4/lubridate/DESCRIPTION | 6 +++--- lubridate-0.2.4/lubridate/NEWS | 7 ++++++- lubridate-0.2.4/lubridate/R/help.r | 4 ++++ lubridate-0.2.4/lubridate/R/parse.r | 2 +- lubridate-0.2.4/lubridate/inst/CITATION |only lubridate-0.2.4/lubridate/man/lubridate.Rd | 3 +++ 7 files changed, 17 insertions(+), 5 deletions(-)
Title: Whole Genome Average Interval Mapping for QTL detection using
mixed models
Description: This package integrates sophisticated mixed modelling
methods with a whole genome approach to detecting significant
QTL's in linkage maps.
Author: Julian Taylor
Maintainer: Julian Taylor
Diff between wgaim versions 0.99-4.2 dated 2011-04-04 and 0.99-4.3 dated 2011-04-05
DESCRIPTION | 6 +++--- R/wgaim.R | 11 +++-------- inst/CITATION |only man/cross2int.Rd | 11 +++++++---- man/link.map.cross.Rd | 5 +++++ man/link.map.default.Rd | 5 +++++ man/link.map.wgaim.Rd | 5 +++++ man/out.stat.Rd | 5 +++++ man/read.interval.Rd | 11 ++++++++--- man/summary.wgaim.Rd | 8 ++++++-- man/tr.wgaim.Rd | 5 +++++ man/wgaim-package.Rd | 14 ++++++++++---- man/wgaim.asreml.Rd | 15 +++++++-------- man/wmerge.Rd | 5 +++++ 14 files changed, 74 insertions(+), 32 deletions(-)
Title: Implement tour methods in pure R code
Description: Implements geodesic interpolation and basis generation
functions that allow you to create new tour methods from R.
Author: Dianne Cook
Maintainer: Hadley Wickham
Diff between tourr versions 0.3.1 dated 2011-02-04 and 0.4 dated 2011-04-05
tourr-0.3.1/tourr/inst/doc |only tourr-0.4/tourr/DESCRIPTION | 10 +++++----- tourr-0.4/tourr/NEWS | 6 ++++++ tourr-0.4/tourr/R/animate.r | 4 ++++ tourr-0.4/tourr/R/history.r | 4 ++++ tourr-0.4/tourr/R/path-andrews.r | 6 +++++- tourr-0.4/tourr/R/path-dist.r | 2 ++ tourr-0.4/tourr/R/path-index.r | 8 ++------ tourr-0.4/tourr/R/render.r | 4 ++++ tourr-0.4/tourr/inst/CITATION |only tourr-0.4/tourr/man/animate.Rd | 4 ++++ tourr-0.4/tourr/man/path_curves.Rd | 4 +++- tourr-0.4/tourr/man/path_dist.Rd | 4 +++- tourr-0.4/tourr/man/render.Rd | 4 ++++ tourr-0.4/tourr/man/save_history.Rd | 4 ++++ 15 files changed, 50 insertions(+), 14 deletions(-)
Title: Time-of-flight mass spectra signal processing
Description: rTOFsPRO provides functions for signal processing of the
linear TOF spectra to produce aligned peak intensity matrix
(and peak positions)
Author: Dariya Malyarenko, Maureen Tracy and William Cooke
Maintainer: Dariya Malyarenko
Diff between rTOFsPRO versions 1.3 dated 2011-02-23 and 1.4 dated 2011-04-05
DESCRIPTION | 6 +++--- man/mainRTOFsPROc.Rd | 3 +-- man/mainRTOFsPROcModular.Rd | 3 +-- 3 files changed, 5 insertions(+), 7 deletions(-)
Title: Polytomous variable Latent Class Analysis
Description: Latent class analysis and latent class regression models
for polytomous outcome variables. Also known as latent
structure analysis.
Author: Drew Linzer
Maintainer: Drew Linzer
Diff between poLCA versions 1.2 dated 2010-05-12 and 1.3 dated 2011-04-05
poLCA-1.2/poLCA/inst/doc/poLCA-manual-1-2.pdf |only poLCA-1.2/poLCA/man/poLCA.makeplot.dich.Rd |only poLCA-1.2/poLCA/man/poLCA.makeplot.poly.Rd |only poLCA-1.3/poLCA/DESCRIPTION | 8 +-- poLCA-1.3/poLCA/NAMESPACE | 2 poLCA-1.3/poLCA/R/plot.poLCA.R |only poLCA-1.3/poLCA/R/poLCA.R | 61 ++++++++++++------------ poLCA-1.3/poLCA/R/poLCA.entropy.R |only poLCA-1.3/poLCA/R/poLCA.makeplot.dich.R | 2 poLCA-1.3/poLCA/R/poLCA.posterior.R |only poLCA-1.3/poLCA/R/poLCA.predcell.R |only poLCA-1.3/poLCA/R/poLCA.simdata.R | 18 +++---- poLCA-1.3/poLCA/R/poLCA.table.R | 16 +++--- poLCA-1.3/poLCA/R/print.poLCA.R | 2 poLCA-1.3/poLCA/data/carcinoma.rda |binary poLCA-1.3/poLCA/data/cheating.rda |binary poLCA-1.3/poLCA/data/election.rda |binary poLCA-1.3/poLCA/data/gss82.rda |binary poLCA-1.3/poLCA/data/values.rda |binary poLCA-1.3/poLCA/inst/doc/index.html | 2 poLCA-1.3/poLCA/inst/doc/poLCA-manual-1-3.pdf |only poLCA-1.3/poLCA/inst/doc/poLCA-manual-example.R | 4 - poLCA-1.3/poLCA/man/carcinoma.Rd | 6 +- poLCA-1.3/poLCA/man/election.Rd | 46 +++++++++--------- poLCA-1.3/poLCA/man/gss82.Rd | 4 - poLCA-1.3/poLCA/man/plot.poLCA.Rd |only poLCA-1.3/poLCA/man/poLCA.Rd | 51 +++++--------------- poLCA-1.3/poLCA/man/poLCA.entropy.Rd |only poLCA-1.3/poLCA/man/poLCA.posterior.Rd |only poLCA-1.3/poLCA/man/poLCA.predcell.Rd |only poLCA-1.3/poLCA/man/poLCA.simdata.Rd | 28 +++++------ poLCA-1.3/poLCA/man/rmulti.Rd | 6 +- poLCA-1.3/poLCA/man/values.Rd | 6 +- 33 files changed, 126 insertions(+), 136 deletions(-)
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for
univariate and multi-dimensional outputs with diagnostic plots.
Contact the maintainer for a package version that implements
sensitivity analysis functionality.
Author: Garrett M. Dancik
Maintainer: Garrett M. Dancik
Diff between mlegp versions 3.1.1 dated 2010-05-06 and 3.1.2 dated 2011-04-05
mlegp-3.1.1/mlegp/inst/doc/.log |only mlegp-3.1.1/mlegp/inst/doc/Makefile |only mlegp-3.1.1/mlegp/inst/doc/Rplots.pdf |only mlegp-3.1.1/mlegp/inst/doc/gp_ex-003.pdf |only mlegp-3.1.1/mlegp/inst/doc/mlegp-003.pdf |only mlegp-3.1.1/mlegp/inst/doc/mlegp-018.pdf |only mlegp-3.1.1/mlegp/inst/doc/mlegp.out |only mlegp-3.1.2/mlegp/CHANGES | 3 +++ mlegp-3.1.2/mlegp/DESCRIPTION | 10 +++++----- mlegp-3.1.2/mlegp/READ_ME | 6 ++---- mlegp-3.1.2/mlegp/inst/doc/mlegp.pdf |binary mlegp-3.1.2/mlegp/man/CV.Rd | 2 +- mlegp-3.1.2/mlegp/man/createGP.Rd | 2 +- mlegp-3.1.2/mlegp/man/createWindow.Rd | 2 +- mlegp-3.1.2/mlegp/man/gp.list.Rd | 2 +- mlegp-3.1.2/mlegp/man/is.gp.Rd | 2 +- mlegp-3.1.2/mlegp/man/mlegp-internal.Rd | 2 +- mlegp-3.1.2/mlegp/man/mlegp-naming-functions.Rd | 2 +- mlegp-3.1.2/mlegp/man/mlegp-package.Rd | 2 +- mlegp-3.1.2/mlegp/man/mlegp.Rd | 2 +- mlegp-3.1.2/mlegp/man/nugget.Rd | 2 +- mlegp-3.1.2/mlegp/man/paramLookup.Rd | 2 +- mlegp-3.1.2/mlegp/man/plot.gp.Rd | 2 +- mlegp-3.1.2/mlegp/man/plot.gp.list.Rd | 2 +- mlegp-3.1.2/mlegp/man/plotObservedEffects.Rd | 2 +- mlegp-3.1.2/mlegp/man/predict.gp.Rd | 2 +- mlegp-3.1.2/mlegp/man/print.gp.Rd | 2 +- mlegp-3.1.2/mlegp/man/print.gp.list.Rd | 2 +- mlegp-3.1.2/mlegp/man/summary.gp.Rd | 2 +- mlegp-3.1.2/mlegp/man/summary.gp.list.Rd | 2 +- mlegp-3.1.2/mlegp/man/uniqueSummary.Rd | 2 +- 31 files changed, 30 insertions(+), 29 deletions(-)
Title: Gumbel copula
Description: stand alone package providing R functions for the
Gumbel-Hougaard copula. We provide probality functions
(cumulative distribution and density functions), simulation
function (Gumbel copula multivariate simulation) and estimation
functions (Maximum Likelihood Estimation, Inference For
Margins, Moment Based Estimation and Canonical Maximum
Likelihood).
Author: Anne-Lise Caillat, Christophe Dutang, Véronique Larrieu and
Triet Nguyen
Maintainer: Christophe Dutang
Diff between gumbel versions 1.01 dated 2009-02-08 and 1.02 dated 2011-04-05
gumbel-1.01/gumbel/inst/doc/Makefile |only gumbel-1.02/gumbel/DESCRIPTION | 23 ++++++++++++++++------- gumbel-1.02/gumbel/inst/doc/gumbel.pdf |binary 3 files changed, 16 insertions(+), 7 deletions(-)
Title: The Analysis of Biological Data
Description: The abd package contains data sets and sample code for The
Analysis of Biological Data by Michael Whitlock and Dolph
Schluter (2009; Roberts & Company Publishers).
Author: Kevin M. Middleton
Maintainer: Kevin M. Middleton
Diff between abd versions 0.1-12 dated 2011-01-26 and 0.1-18 dated 2011-04-05
DESCRIPTION | 19 ++++------ R/as.xtabs.R |only R/repeatability.R | 30 +++++++++++++--- R/varcomps.R | 10 ++--- abd-Ex.R | 65 +++++++++++++++++++---------------- demo/00Index | 5 ++ demo/examples.R | 93 ++++++++++++++++----------------------------------- demo/sec17.8.R |only demo/sec2.5.R | 2 - demo/sec9.2.R |only demo/sec9.3.R |only demo/sec9.4.R |only demo/sec9.5.R |only man/Aspirin.Rd | 8 ---- man/Blackbirds.Rd | 4 +- man/Trematodes.Rd | 9 ++-- man/VampireBites.Rd | 15 -------- man/abd-package.Rd | 4 +- man/as.xtabs.Rd |only man/repeatability.Rd | 33 ++++++++++++------ 20 files changed, 144 insertions(+), 153 deletions(-)
Title: R Server Pages
Description: An R Server Page (RSP) is a document that contains both
text in a format of choice (HTML, TeX, Rnw, ...) as well as R
source code within special tags. An RSP file can be translated
into a so called R servlet, which is an R script that outputs
the final document when sourced. This way documents in any
format can be generated dynamically using R, e.g. automatic
reports of statistical analysis. Utilizing an internal
cross-platform web server, this package provides dynamic help
pages in HTML. If other packages provide RSP help pages, these
are automatically linked to in the RSP main menu.
Author: Henrik Bengtsson
Maintainer: Henrik Bengtsson
Diff between R.rsp versions 0.4.5 dated 2011-03-09 and 0.4.9 dated 2011-04-05
R.rsp-0.4.5/R.rsp/inst/tex.rsp |only R.rsp-0.4.9/R.rsp/DESCRIPTION | 10 - R.rsp-0.4.9/R.rsp/R/999.NonDocumentedObjects.R | 3 R.rsp-0.4.9/R.rsp/R/FileRspResponse.R | 2 R.rsp-0.4.9/R.rsp/R/HttpDaemon.R | 8 R.rsp-0.4.9/R.rsp/R/HttpDaemonRspResponse.R | 5 R.rsp-0.4.9/R.rsp/R/browseRsp.R | 21 +- R.rsp-0.4.9/R.rsp/R/evalWithEcho.R |only R.rsp-0.4.9/R.rsp/R/parseRsp.R | 201 +++++++++++++++++++++++- R.rsp-0.4.9/R.rsp/R/processRsp.HttpDaemon.R | 9 - R.rsp-0.4.9/R.rsp/R/sourceWithTrim.R |only R.rsp-0.4.9/R.rsp/R/translateRspV1.R | 12 - R.rsp-0.4.9/R.rsp/incl/rsptex.Rex | 2 R.rsp-0.4.9/R.rsp/inst/NEWS | 32 +++ R.rsp-0.4.9/R.rsp/inst/doc/index.html | 42 +++-- R.rsp-0.4.9/R.rsp/inst/doc/report.pdf |only R.rsp-0.4.9/R.rsp/inst/doc/report.tex.rsp |only R.rsp-0.4.9/R.rsp/inst/rsp/index.rsp | 18 +- R.rsp-0.4.9/R.rsp/man/HttpDaemon.Rd | 2 R.rsp-0.4.9/R.rsp/man/Non-documented_objects.Rd | 3 R.rsp-0.4.9/R.rsp/man/getConfig.HttpDaemon.Rd | 4 R.rsp-0.4.9/R.rsp/man/rsptex.Rd | 2 R.rsp-0.4.9/R.rsp/man/translateRspV1.Rd | 2 23 files changed, 326 insertions(+), 52 deletions(-)
Title: Utility Functions of the Potts Models
Description: A package including several functions related to the Potts
models.
Author: Dai Feng
Maintainer: Dai Feng
Diff between PottsUtils versions 0.2-1 dated 2011-04-01 and 0.2-2 dated 2011-04-05
ChangeLog |only DESCRIPTION | 6 +++--- inst/doc/Intro.Rnw |only inst/doc/Intro.bib |only inst/doc/Intro.pdf |binary inst/doc/figures |only man/BlocksGibbs.Rd | 6 +++--- man/SW.Rd | 12 ++++++------ man/Wolff.Rd | 14 +++++++------- man/getBlocks.Rd | 6 +++--- man/getConfs.Rd | 4 ++-- man/getEdges.Rd | 3 ++- man/getNC.Rd | 3 +-- man/getNeighbors.Rd | 9 ++++----- man/getPatches.Rd | 4 ++-- man/getWeights.Rd | 6 +++--- man/rPotts1.Rd | 24 ++++++++++-------------- 17 files changed, 46 insertions(+), 51 deletions(-)
Title: Log-concave Density Estimation in Arbitrary Dimensions
Description: Computes a log-concave (maximum likelihood) estimator for
i.i.d. data in any number of dimensions.
Author: Madeleine Cule, Robert Gramacy, Richard Samworth, Yining Chen
Maintainer: Yining Chen
Diff between LogConcDEAD versions 1.5-1 dated 2011-02-11 and 1.5-2 dated 2011-04-05
LogConcDEAD-1.5-1/LogConcDEAD/inst/doc/Makefile |only LogConcDEAD-1.5-2/LogConcDEAD/ChangeLog | 2 LogConcDEAD-1.5-2/LogConcDEAD/DESCRIPTION | 8 +-- LogConcDEAD-1.5-2/LogConcDEAD/inst/doc/LogConcDEAD.pdf |binary LogConcDEAD-1.5-2/LogConcDEAD/inst/doc/example1d.intRnw | 8 +-- LogConcDEAD-1.5-2/LogConcDEAD/inst/doc/example2d.intRnw | 8 +-- LogConcDEAD-1.5-2/LogConcDEAD/inst/doc/example3d.intRnw | 4 - LogConcDEAD-1.5-2/LogConcDEAD/inst/doc/examplebin.intRnw | 40 --------------- 8 files changed, 18 insertions(+), 52 deletions(-)
Title: R Bindings for the Discourse Network Analyzer
Description: A package that controls the Java software Discourse
Network Analyzer (DNA) from within R. Network matrices,
statement frequency time series and attributes of actors can be
transferred directly into R.
Author: Philip Leifeld
Maintainer: Philip Leifeld
Diff between rDNA versions 1.2 dated 2011-03-18 and 1.26 dated 2011-04-05
DESCRIPTION | 8 ++++---- R/rDNA.R | 12 ++++++------ man/dna.attributes.Rd | 6 +++--- man/dna.categories.Rd | 6 +++--- man/dna.density.Rd | 6 +++--- man/dna.init.Rd | 10 +++++----- man/dna.network.Rd | 27 +++++++++++++-------------- man/dna.timeseries.Rd | 6 +++--- 8 files changed, 40 insertions(+), 41 deletions(-)