Title: Tools to check R code style
Diff between lint versions 0.2 dated 2012-08-09 and 0.3 dated 2013-01-23
Description: Tools fro checking R code for syle compliance. Tools for
creating style compliance tests. A suite of prebuilt tests is
provided.
Author: Andrew Redd
Maintainer: Andrew Redd
DESCRIPTION | 16 +-
MD5 | 77 +++++------
NAMESPACE | 83 ++++++------
NEWS | 9 +
R/base.patterns.R | 29 ++--
R/conversion.R | 204 ++++++++++++++++-------------
R/family.R | 24 +--
R/find-utils.R | 8 -
R/finders.R | 46 ++++--
R/functional.R | 4
R/lint.R | 51 ++++++-
R/lint.patterns.R | 2
R/pattern-utils.R | 64 +++++----
R/styles.assignment.R | 22 +--
R/styles.performance.R | 6
R/styles.spacing.R | 181 +++++++++++++++-----------
inst/examples/check-infix.R | 4
inst/examples/ex-conversion.R | 6
inst/examples/small-file.R |only
inst/tests/test-base.patterns.R | 4
inst/tests/test-conversion.R | 54 +++++--
inst/tests/test-find.R | 44 +++---
inst/tests/test-infrastructure.R | 11 -
inst/tests/test-styles.assignment.R | 2
inst/tests/test-styles.spacing.R | 7 -
man/assignment-styles.Rd | 40 ++---
man/base-patterns.Rd | 78 +++++------
man/check_pattern.Rd | 62 ++++-----
man/conversion.Rd | 246 +++++++++++++++++-------------------
man/dispatch_test.Rd | 67 ++++-----
man/find_example.Rd |only
man/finders.Rd | 170 ++++++++++++------------
man/functional.Rd.Rd | 80 +++++------
man/lint.Rd | 62 ++++-----
man/package-lint.Rd | 30 ++--
man/performance-styles.Rd | 36 ++---
man/rr.Rd |only
man/stylechecks.Rd | 114 ++++++++--------
man/test_style.Rd | 65 ++++-----
man/with_default.Rd | 36 ++---
tests/test_package.R | 1
41 files changed, 1108 insertions(+), 937 deletions(-)
Title: Spatially explicit capture-recapture
Diff between secr versions 2.4.0 dated 2012-11-05 and 2.5.0 dated 2013-01-23
Description: Functions to estimate the density and size of a spatially
distributed animal population sampled with an array of passive
detectors, such as traps, or by searching polygons or
transects. Models incorporating distance-dependent detection
are fitted by maximizing the likelihood. Tools are included for
data manipulation and model selection.
Author: Murray Efford
Maintainer: Murray Efford
secr-2.4.0/secr/R/functions.R |only
secr-2.4.0/secr/R/randomHabitat.r |only
secr-2.4.0/secr/R/reduce.capthist.R |only
secr-2.5.0/secr/DESCRIPTION | 8
secr-2.5.0/secr/MD5 | 152 -
secr-2.5.0/secr/NAMESPACE | 7
secr-2.5.0/secr/NEWS | 85
secr-2.5.0/secr/R/DENSITY.R | 31
secr-2.5.0/secr/R/SPACECAP.R | 20
secr-2.5.0/secr/R/addCovariates.R | 6
secr-2.5.0/secr/R/autoini.R | 89
secr-2.5.0/secr/R/confint.secr.R | 6
secr-2.5.0/secr/R/derivedMS.R | 8
secr-2.5.0/secr/R/empirical.R | 5
secr-2.5.0/secr/R/esa.R | 44
secr-2.5.0/secr/R/fxi.R | 83
secr-2.5.0/secr/R/ip.secr.R | 15
secr-2.5.0/secr/R/join.R | 43
secr-2.5.0/secr/R/methods.R | 199 +
secr-2.5.0/secr/R/pdot.R | 70
secr-2.5.0/secr/R/randomHabitat.R |only
secr-2.5.0/secr/R/read.traps.R | 70
secr-2.5.0/secr/R/reduce.R |only
secr-2.5.0/secr/R/regionN.R | 68
secr-2.5.0/secr/R/score.test.R | 2
secr-2.5.0/secr/R/secr.design.MS.R | 8
secr-2.5.0/secr/R/secr.fit.R | 319 +-
secr-2.5.0/secr/R/secr.make.newdata.R | 19
secr-2.5.0/secr/R/secrloglik.R |only
secr-2.5.0/secr/R/sim.capthist.R | 85
secr-2.5.0/secr/R/sim.secr.R | 24
secr-2.5.0/secr/R/snip.R |only
secr-2.5.0/secr/R/split.traps.R | 6
secr-2.5.0/secr/R/suggest.buffer.R | 36
secr-2.5.0/secr/R/telemetry.R | 13
secr-2.5.0/secr/R/usagePlot.R |only
secr-2.5.0/secr/R/utility.R | 28
secr-2.5.0/secr/R/verify.R | 25
secr-2.5.0/secr/data/deermouse.RData |binary
secr-2.5.0/secr/data/housemouse.RData |binary
secr-2.5.0/secr/data/ovenbird.RData |binary
secr-2.5.0/secr/data/ovensong.RData |binary
secr-2.5.0/secr/data/possum.RData |binary
secr-2.5.0/secr/data/secrdemo.RData |binary
secr-2.5.0/secr/data/stoatDNA.RData |binary
secr-2.5.0/secr/inst/doc/index.html | 62
secr-2.5.0/secr/inst/doc/secr-datainput.pdf |binary
secr-2.5.0/secr/inst/doc/secr-manual.pdf |binary
secr-2.5.0/secr/inst/doc/secr-overview.pdf |binary
secr-2.5.0/secr/inst/doc/secr-polygondetectors.pdf |binary
secr-2.5.0/secr/inst/doc/secr-varyingeffort.pdf |only
secr-2.5.0/secr/man/AIC.secr.Rd | 12
secr-2.5.0/secr/man/Parallel.Rd | 2
secr-2.5.0/secr/man/SPACECAP.Rd | 5
secr-2.5.0/secr/man/addTelemetry.Rd | 3
secr-2.5.0/secr/man/autoini.Rd | 41
secr-2.5.0/secr/man/cluster.Rd | 7
secr-2.5.0/secr/man/contour.Rd | 23
secr-2.5.0/secr/man/fxi.Rd | 9
secr-2.5.0/secr/man/hornedlizard.Rd | 2
secr-2.5.0/secr/man/ip.secr.Rd | 3
secr-2.5.0/secr/man/pdot.Rd | 10
secr-2.5.0/secr/man/plot.mask.Rd | 3
secr-2.5.0/secr/man/plot.traps.Rd | 9
secr-2.5.0/secr/man/pointsInPolygon.Rd | 5
secr-2.5.0/secr/man/read.traps.Rd | 6
secr-2.5.0/secr/man/reduce.Rd | 14
secr-2.5.0/secr/man/reduce.capthist.Rd | 135
secr-2.5.0/secr/man/secr-package.Rd | 7
secr-2.5.0/secr/man/secr.design.MS.Rd | 19
secr-2.5.0/secr/man/secr.fit.Rd | 13
secr-2.5.0/secr/man/snip.Rd |only
secr-2.5.0/secr/man/suggest.buffer.Rd | 12
secr-2.5.0/secr/man/timevaryingcov.Rd | 7
secr-2.5.0/secr/man/traps.Rd | 36
secr-2.5.0/secr/man/usage.Rd | 53
secr-2.5.0/secr/man/usagePlot.Rd |only
secr-2.5.0/secr/src/polygon.c |only
secr-2.5.0/secr/src/secr.c | 3022 ++++++++-------------
secr-2.5.0/secr/src/secr.h | 121
secr-2.5.0/secr/src/simsecr.c | 88
secr-2.5.0/secr/src/trapping.c | 736 ++---
secr-2.5.0/secr/src/utils.c | 140
83 files changed, 3249 insertions(+), 2930 deletions(-)
Title: A few useful functions for statisticians
Diff between packHV versions 1.1 dated 2013-01-19 and 1.2 dated 2013-01-23
Description: Various useful functions for statisticians
Author: Hugo Varet
Maintainer: Hugo Varet
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
R/convert_factor.R | 3 ++-
R/convert_zero_NA.R | 3 ++-
man/convert_factor.Rd | 6 +++---
man/convert_zero_NA.Rd | 9 +++++----
man/desc.Rd | 2 +-
man/packHV-package.Rd | 4 ++--
8 files changed, 26 insertions(+), 23 deletions(-)
Title: Multivariate meta-analysis and meta-regression
Diff between mvmeta versions 0.3.1 dated 2012-08-24 and 0.3.4 dated 2013-01-23
Description: The package mvmeta consists of a collection of functions
to perform fixed and random-effects multivariate and univariate
meta-analysis and meta-regression in R.
Author: Antonio Gasparrini
Maintainer: Antonio Gasparrini
mvmeta-0.3.1/mvmeta/inst/ChangeLog |only
mvmeta-0.3.1/mvmeta/otherR/simulate.mvmeta.R |only
mvmeta-0.3.4/mvmeta/DESCRIPTION | 11 -
mvmeta-0.3.4/mvmeta/MD5 | 103 ++++++++--------
mvmeta-0.3.4/mvmeta/NAMESPACE | 33 ++---
mvmeta-0.3.4/mvmeta/R/blup.R | 4
mvmeta-0.3.4/mvmeta/R/blup.mvmeta.R | 4
mvmeta-0.3.4/mvmeta/R/coef.mvmeta.R | 8 -
mvmeta-0.3.4/mvmeta/R/extractAIC.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/internal.R | 120 +++++++++----------
mvmeta-0.3.4/mvmeta/R/logLik.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/model.frame.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/model.matrix.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/mvmeta.R | 14 +-
mvmeta-0.3.4/mvmeta/R/mvmeta.control.R | 14 +-
mvmeta-0.3.4/mvmeta/R/mvmeta.fit.R | 12 -
mvmeta-0.3.4/mvmeta/R/mvmeta.fixed.R | 8 -
mvmeta-0.3.4/mvmeta/R/mvmeta.igls.R | 10 -
mvmeta-0.3.4/mvmeta/R/mvmeta.ml.R | 14 +-
mvmeta-0.3.4/mvmeta/R/mvmeta.ml.fn.R | 6
mvmeta-0.3.4/mvmeta/R/mvmeta.ml.gr.R | 6
mvmeta-0.3.4/mvmeta/R/mvmeta.mm.R |only
mvmeta-0.3.4/mvmeta/R/mvmeta.reml.R | 14 +-
mvmeta-0.3.4/mvmeta/R/mvmeta.reml.fn.R | 11 +
mvmeta-0.3.4/mvmeta/R/mvmeta.reml.gr.R | 13 +-
mvmeta-0.3.4/mvmeta/R/mvmetaSim.R |only
mvmeta-0.3.4/mvmeta/R/na.exclude.data.frame.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/na.omit.data.frame.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/nobs.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/predict.mvmeta.R | 10 -
mvmeta-0.3.4/mvmeta/R/print.mvmeta.R | 23 +--
mvmeta-0.3.4/mvmeta/R/print.qtest.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/print.summary.mvmeta.R | 25 ++-
mvmeta-0.3.4/mvmeta/R/qtest.R | 8 -
mvmeta-0.3.4/mvmeta/R/qtest.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/simulate.mvmeta.R |only
mvmeta-0.3.4/mvmeta/R/summary.mvmeta.R | 10 -
mvmeta-0.3.4/mvmeta/R/vcov.mvmeta.R | 6
mvmeta-0.3.4/mvmeta/R/vechMat.R | 6
mvmeta-0.3.4/mvmeta/R/xpndMat.R | 7 -
mvmeta-0.3.4/mvmeta/inst/CITATION | 18 +-
mvmeta-0.3.4/mvmeta/inst/changeLog |only
mvmeta-0.3.4/mvmeta/man/berkey98.Rd | 4
mvmeta-0.3.4/mvmeta/man/blup.mvmeta.Rd | 4
mvmeta-0.3.4/mvmeta/man/mvmeta-package.Rd | 45 +++++--
mvmeta-0.3.4/mvmeta/man/mvmeta.Rd | 20 +--
mvmeta-0.3.4/mvmeta/man/mvmeta.control.Rd | 19 +--
mvmeta-0.3.4/mvmeta/man/mvmeta.ml.Rd | 35 +++--
mvmeta-0.3.4/mvmeta/man/mvmeta.ml.fn.Rd | 10 -
mvmeta-0.3.4/mvmeta/man/mvmetaObject.Rd | 5
mvmeta-0.3.4/mvmeta/man/mvmetaSim.Rd |only
mvmeta-0.3.4/mvmeta/man/na.omit.data.frame.mvmeta.Rd | 2
mvmeta-0.3.4/mvmeta/man/predict.mvmeta.Rd | 8 -
mvmeta-0.3.4/mvmeta/man/qtest.mvmeta.Rd | 6
mvmeta-0.3.4/mvmeta/man/summary.mvmeta.Rd | 6
mvmeta-0.3.4/mvmeta/otherR/mvmeta.mm2.R |only
mvmeta-0.3.4/mvmeta/otherR/mvmeta.mmb.R |only
57 files changed, 398 insertions(+), 338 deletions(-)
Title: Functions for calculating daily solar radiation and
evapotranspiration
Diff between sirad versions 2.0-2 dated 2012-09-07 and 2.0-7 dated 2013-01-23
Description: Package provides functions to calculate daily solar
radiation at horizontal surface using several well-known
models. It also includes functions for model calibration based
on ground-truth data as well as a function for
auto-calibration. The FAO Penmann-Monteith equation to
calculate evapotranspiration is also included.
Author: Jedrzej S. Bojanowski
Maintainer: Jedrzej S. Bojanowski
DESCRIPTION | 14 ++++-----
MD5 | 58 +++++++++++++++++++++-------------------
NAMESPACE | 2 -
R/ap.R | 6 ++--
R/apcal.R | 13 ++++++---
R/bc.R | 6 ++--
R/bcauto.R | 20 ++++++-------
R/bccal.R | 6 ++--
R/cstRead.r |only
R/dayLength.R | 7 ++++
R/ha.R | 6 ++--
R/hacal.R | 7 ++--
R/hauto.r | 18 ++++++------
R/modeval.r | 73 ++++++++++++++++++++++++++++++++++-----------------
R/su.R | 6 ++--
R/sucal.R | 8 ++---
data/CSTmap.rda |only
man/CSTmap.Rd |only
man/ap.Rd | 7 +++-
man/apcal.Rd | 10 +++++-
man/bc.Rd | 11 ++++---
man/bcauto.Rd | 7 +++-
man/bccal.Rd | 7 +++-
man/cst.Rd | 2 -
man/cstRead.Rd |only
man/ha.Rd | 7 +++-
man/hacal.Rd | 7 +++-
man/hauto.Rd | 7 +++-
man/modeval.Rd | 17 +++++++++--
man/sirad-package.Rd | 6 ++--
man/su.Rd | 7 +++-
man/sucal.Rd | 7 +++-
32 files changed, 218 insertions(+), 134 deletions(-)
Title: Example data for analyzing OmniLog(R) Phenotype Microarray data
Diff between opmdata versions 0.3-0 dated 2012-12-17 and 0.4-0 dated 2013-01-23
Description: The package `opm' provides tools for analyzing OmniLog(R)
Phenotype Microarray (PM) data as produced by the device
distributed by BIOLOG Inc. The package `opmdata' contains the
entire example dataset from Vaas et al. (2012), which has been
removed from `opm' due to its size.
Author: Markus Goeker, with contributions by Lea A.I. Vaas and Johannes
Sikorski
Maintainer: Markus Goeker
ChangeLog | 8 +++++++-
DESCRIPTION | 14 +++++++-------
MD5 | 13 +++++++------
NEWS | 11 ++++++++++-
R/data.R | 4 ++--
R/hooks.R |only
data/vaas_et_al.rda |binary
man/vaas_et_al.Rd | 2 +-
8 files changed, 34 insertions(+), 18 deletions(-)
Title: R Interface to C API of IBM ILOG CPLEX
Diff between cplexAPI versions 1.2.4 dated 2012-12-19 and 1.2.6 dated 2013-01-23
Description: R Interface to C API of IBM ILOG CPLEX, depends on IBM
ILOG CPLEX (>= 12.1)
Author: Gabriel Gelius-Dietrich [aut, cre]
Maintainer: Gabriel Gelius-Dietrich
DESCRIPTION | 8 +++----
MD5 | 50 +++++++++++++++++++++++------------------------
R/cplex.R | 4 +--
R/cplexAPI.R | 4 +--
R/cplexConst.R | 8 +++++--
R/cplexErrorClass.R | 4 +--
R/cplexPtrClass.R | 4 +--
R/cplex_checkAPI.R | 4 +--
R/cplex_longparamAPI.R | 4 +--
R/generics.R | 4 +--
R/zzz.R | 12 ++++++++---
configure | 33 ++++++++++++++++++-------------
configure.ac | 17 +++++++++++----
inst/NEWS.Rd | 20 ++++++++++++++++++
inst/doc/cplexAPI.pdf |binary
man/cplexConstants.Rd | 8 +++++++
src/Makevars.win | 2 -
src/cplexAPI.c | 4 +--
src/cplexAPI.h | 4 +--
src/cplexR.c | 4 +--
src/cplexR.h | 4 +--
src/cplex_checkAPI.c | 4 +--
src/cplex_checkAPI.h | 4 +--
src/cplex_longparamAPI.c | 4 +--
src/cplex_longparamAPI.h | 4 +--
src/init.c | 4 +--
26 files changed, 137 insertions(+), 85 deletions(-)
Title: Bayesian Palaeoclimate Reconstruction from Pollen
Diff between Bclim versions 2.1 dated 2012-06-22 and 2.2 dated 2013-01-23
Description: This package takes pollen/time data from lake cores and
produces a Bayesian posterior distribution of palaeoclimate
from that location after fitting a non-linear non-Gaussian
state-space model. This latest version fixes a bug where
volatilities were estimated incorrectly
Author: Andrew Parnell, Thinh Doan and James Sweeney
Maintainer: Andrew Parnell
Bclim-2.1/Bclim/R/IGb.R |only
Bclim-2.1/Bclim/R/IGp.R |only
Bclim-2.1/Bclim/R/IGrv.R |only
Bclim-2.1/Bclim/R/zzz.R |only
Bclim-2.2/Bclim/DESCRIPTION | 13 +-
Bclim-2.2/Bclim/MD5 | 44 ++++----
Bclim-2.2/Bclim/NAMESPACE | 2
Bclim-2.2/Bclim/R/Bclim-internal.R |only
Bclim-2.2/Bclim/R/Bclim.R |only
Bclim-2.2/Bclim/R/BclimInterp.R | 176 +++++++++++++++++++++--------------
Bclim-2.2/Bclim/R/BclimMCMC.R | 10 -
Bclim-2.2/Bclim/R/BclimMixPar.R | 2
Bclim-2.2/Bclim/R/NIGB.R | 29 ++---
Bclim-2.2/Bclim/R/NIGp3.R | 18 +--
Bclim-2.2/Bclim/man/Bclim-package.Rd | 10 -
Bclim-2.2/Bclim/man/BclimCompile.Rd | 2
Bclim-2.2/Bclim/man/BclimInterp.Rd | 8 -
Bclim-2.2/Bclim/man/BclimMCMC.Rd | 4
Bclim-2.2/Bclim/man/BclimMixPar.Rd | 2
Bclim-2.2/Bclim/man/BclimMixSer.Rd | 2
Bclim-2.2/Bclim/man/BclimRun.Rd | 2
Bclim-2.2/Bclim/man/NIGB.Rd |only
Bclim-2.2/Bclim/man/NIGp3.Rd |only
Bclim-2.2/Bclim/man/plotBclim.Rd | 2
Bclim-2.2/Bclim/man/plotBclimVol.Rd | 4
Bclim-2.2/Bclim/src/BclimMCMC3D.c | 51 +++++++++-
Bclim-2.2/Bclim/src/use.c | 4
27 files changed, 237 insertions(+), 148 deletions(-)
Title: An Rcmdr Plug-In for Kaplan-Meier Plots and Other Plots by Using
the ggplot2 Package
Diff between RcmdrPlugin.KMggplot2 versions 0.1-1 dated 2012-09-04 and 0.2-0 dated 2013-01-23
More information about RcmdrPlugin.KMggplot2 at CRAN
Description: This package is an R Commander plug-in for Kaplan-Meier
plots and other plots by using the ggplot2 package.
Author: Triad sou. and Kengo NAGASHIMA
Maintainer: Triad sou.
RcmdrPlugin.KMggplot2-0.1-1/RcmdrPlugin.KMggplot2/R/theme-bw.R |only
RcmdrPlugin.KMggplot2-0.1-1/RcmdrPlugin.KMggplot2/R/theme-gray.R |only
RcmdrPlugin.KMggplot2-0.1-1/RcmdrPlugin.KMggplot2/man/theme-bw.Rd |only
RcmdrPlugin.KMggplot2-0.1-1/RcmdrPlugin.KMggplot2/man/theme-gray.Rd |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/DESCRIPTION | 33 -
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/MD5 | 64 +--
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/NAMESPACE | 13
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/NEWS | 68 +--
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/guiparts-toolbox.R | 24 -
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/guiparts-variableboxes.R | 15
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/package.R | 3
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-aaa.R | 30 +
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-box.R | 14
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-contour.R | 8
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-discretebar.R | 14
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-dist.R | 8
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-hist.R | 8
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-km.R | 134 +++++-
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-line.R | 8
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-pie.R | 10
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-qq.R | 8
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-scatter.R | 8
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/plot-scattermat.R | 126 +++++-
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/theme-natrisk.R |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/theme-natrisk21.R |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/theme-natriskbg.R |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/theme-simple.R | 61 ---
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/theme-wsj2.R |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/util-gettextKmg2.R | 4
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/R/zzz.R | 26 +
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/inst/po/ja/LC_MESSAGES/R-RcmdrPlugin.KMggplot2.mo |binary
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/man/theme-natrisk.Rd |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/man/theme-natrisk21.Rd |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/man/theme-natriskbg.Rd |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/man/theme-simple.Rd | 7
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/man/theme-wsj2.Rd |only
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/man/util-gettextKmg2.Rd | 3
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/po/R-RcmdrPlugin.KMggplot2-ja.po | 199 ++++------
RcmdrPlugin.KMggplot2-0.2-0/RcmdrPlugin.KMggplot2/po/R-RcmdrPlugin.KMggplot2.pot | 191 ++++-----
39 files changed, 610 insertions(+), 477 deletions(-)
Permanent link
Title: Log-Gaussian Cox Process
Diff between lgcp versions 1.0 dated 2012-11-23 and 1.01 dated 2013-01-23
Description: Spatial and spatio-temporal modelling of point patterns
using the log-Gaussian Cox process
Author: B. M. Taylor, T. M. Davies, B. S. Rowlingson, P. J. Diggle
Maintainer: Benjamin M. Taylor
DESCRIPTION | 6 ++---
MD5 | 43 +++++++++++++++++++++---------------------
R/lgcpInternals.R | 1
R/lgcpPredictSpatial.R | 1
R/lgcpPredictSpatioTemporal.R | 2 +
R/lgcpSimSpatioTemporal.R | 1
R/parameterEstimation.R | 8 +++++++
R/zzz.R | 2 -
inst/CITATION |only
inst/doc/lgcp.pdf |binary
man/Cvb.Rd | 1
man/KinhomAverage.Rd | 1
man/ginhomAverage.Rd | 1
man/lambdaEst-dot-ppp.Rd | 1
man/lambdaEst-dot-stppp.Rd | 1
man/lgcpPredict.Rd | 1
man/lgcpPredictAggregated.Rd | 1
man/lgcpPredictSpatial.Rd | 1
man/lgcpPredictSpatialINLA.Rd | 1
man/lgcpSim.Rd | 1
man/muEst.Rd | 1
man/spatialparsEst.Rd | 1
man/thetaEst.Rd | 1
23 files changed, 52 insertions(+), 25 deletions(-)
Title: Simulation and Analysis of Random Fields
Diff between RandomFields versions 2.0.59 dated 2012-10-05 and 2.0.59-1 dated 2013-01-23
Description: Simulation of Gaussian and extreme value random fields;
conditional simulation; kriging
Author: Martin Schlather
Maintainer: Martin Schlather
RandomFields-2.0.59-1/RandomFields/Copyright | 1 +
RandomFields-2.0.59-1/RandomFields/DESCRIPTION | 12 +++++-------
RandomFields-2.0.59-1/RandomFields/src/Makevars |only
RandomFields-2.0.59-1/RandomFields/src/circulant.cc | 9 ++++++++-
RandomFields-2.0.59-1/RandomFields/src/fft.c |only
RandomFields-2.0.59/RandomFields/MD5 |only
6 files changed, 14 insertions(+), 8 deletions(-)
Title: N-Gram Based Text Categorization
Diff between textcat versions 0.1-1 dated 2012-04-24 and 1.0-0 dated 2013-01-23
Description: Text categorization based on n-grams
Author: Kurt Hornik [aut, cre], Johannes Rauch [aut], Christian Buchta
[aut], Ingo Feinerer [aut]
Maintainer: Kurt Hornik
DESCRIPTION | 13 +++++++------
MD5 | 11 ++++++-----
data/ECIMCI_profiles.rda |binary
data/TC_byte_profiles.rda |binary
data/TC_char_profiles.rda |binary
inst |only
man/textcat.Rd | 6 ++++++
7 files changed, 19 insertions(+), 11 deletions(-)
Title: Population and Evolutionary Genetics Analysis System
Diff between pegas versions 0.4-3 dated 2012-07-31 and 0.4-4 dated 2013-01-23
Description: pegas provides functions for reading, writing, plotting,
analysing, and manipulating allelic and haplotypic data, and
for the analysis of population nucleotide sequences including
coalescence analyses.
Author: Emmanuel Paradis, Alastair Potts
Maintainer: Emmanuel Paradis
DESCRIPTION | 9 +++++----
MD5 | 23 ++++++++++++-----------
NEWS | 27 +++++++++++++++++++++++++++
R/haplotype.R | 54 ++++++++++++++++++++++++++++++++++++++++++++++++++++--
R/hw.test.R | 8 ++++----
R/theta.R | 41 ++++++++++++++++++++++++-----------------
Thanks | 2 +-
man/haploNet.Rd | 2 +-
man/haplotype.Rd | 3 +++
man/mst.Rd |only
man/theta.h.Rd | 3 ++-
man/theta.tree.Rd | 7 ++++++-
man/utilities.Rd | 2 +-
13 files changed, 138 insertions(+), 43 deletions(-)
Title: Computational routines for proton and ion radiotherapy
Diff between libamtrack versions 0.5.3 dated 2012-04-27 and 0.5.4 dated 2013-01-23
Description: This package is the R interface to the open-source, ANSI C
library libamtrack (http://libamtrack.dkfz.org). libamtrack
provides computational routines for the prediction of detector
response and radiobiological efficiency in heavy charged
particle beams. It is designed for research in proton and ion
dosimetry and radiotherapy. libamtrack also provides many
auxiliary physics routines for proton and ion beams. Original
package and C-to-R conversion routines developed by Felix A.
Klein.
Author: Steffen Greilich and the libamtrack team
Maintainer: Steffen Greilich
DESCRIPTION | 12 -
MD5 | 150 +++++++++++------------
R/initial.R | 6
man/AT.A.from.particle.no.Rd | 2
man/AT.CSDA.energy.after.slab.E.MeV.u.Rd | 2
man/AT.CSDA.range.Bethe.g.cm2.Rd | 2
man/AT.CSDA.range.g.cm2.Rd | 2
man/AT.CSDA.range.m.Rd | 2
man/AT.D.RDD.Gy.Rd | 2
man/AT.E.MeV.u.from.momentum.MeV.c.u.Rd | 2
man/AT.E.from.beta.Rd | 2
man/AT.Highland.angle.Rd | 2
man/AT.I.eV.from.composition.Rd | 2
man/AT.I.eV.from.element.acronym.Rd | 2
man/AT.Moliere.function.f0.Rd | 2
man/AT.Moliere.function.f1.Rd | 2
man/AT.Moliere.function.f2.Rd | 2
man/AT.Rutherford.SDCS.Rd | 2
man/AT.Stopping.Power.Mass.Bethe.MeV.cm2.g.Rd | 2
man/AT.Stopping.Power.MeV.cm2.g.Rd | 2
man/AT.Stopping.Power.keV.um.Rd | 2
man/AT.WEPL.Bethe.Rd | 2
man/AT.Z.from.element.acronym.Rd | 2
man/AT.Z.from.particle.no.Rd | 2
man/AT.atomic.weight.from.Z.Rd | 2
man/AT.atomic.weight.from.element.acronym.Rd | 2
man/AT.average.A.from.composition.Rd | 2
man/AT.average.Z.from.composition.Rd | 2
man/AT.beam.par.physical.to.technical.Rd | 2
man/AT.beam.par.technical.to.physical.Rd | 2
man/AT.beta.from.E.Rd | 2
man/AT.characteristic.single.scattering.angle.Rd | 2
man/AT.characteristicple.scattering.angle.Rd | 2
man/AT.density.g.cm3.from.element.acronym.Rd | 2
man/AT.dose.Gy.from.fluence.cm2.Rd | 2
man/AT.dose.weighted.E.MeV.u.Rd | 2
man/AT.dose.weighted.LET.MeV.cm2.g.Rd | 2
man/AT.effective.Z.from.composition.Rd | 2
man/AT.effective.charge.from.E.MeV.u.Rd | 2
man/AT.effective.collision.number.Rd | 2
man/AT.electron.density.m3.Rd | 2
man/AT.electron.density.m3.from.composition.Rd | 2
man/AT.electron.density.m3.from.material.no.Rd | 2
man/AT.element.acronym.from.Z.Rd | 2
man/AT.energy.straggling.MeV2.cm2.g.Rd | 2
man/AT.energy.straggling.after.slab.E.MeV.u.Rd | 2
man/AT.fluence.cm2.from.dose.Gy.Rd | 2
man/AT.fluence.weighted.E.MeV.u.Rd | 2
man/AT.fluence.weighted.LET.MeV.cm2.g.Rd | 2
man/AT.gamma.from.E.Rd | 2
man/AT.get.materials.data.Rd | 2
man/AT.max.E.transfer.MeV.Rd | 2
man/AT.max.electron.ranges.m.Rd | 2
man/AT.mean.number.of.tracks.contrib.Rd | 2
man/AT.momentum.MeV.c.u.from.E.MeV.u.Rd | 2
man/AT.nuclear.spin.from.particle.no.Rd | 2
man/AT.particle.no.from.Z.and.A.Rd | 2
man/AT.r.RDD.m.Rd | 2
man/AT.reduced.target.thickness.Rd | 2
man/AT.run.CPPSC.method.Rd | 2
man/AT.run.GSM.method.Rd | 2
man/AT.run.IGK.method.Rd | 2
man/AT.scattering.angle.distribution.Rd | 2
man/AT.screening.angle.Rd | 2
man/AT.set.user.material.Rd | 2
man/AT.set.user.material.from.composition.Rd | 2
man/AT.stopping.power.ratio.Rd | 2
man/AT.total.D.Gy.Rd | 2
man/AT.total.fluence.cm2.Rd | 2
man/libamtrack-package.Rd | 4
src/AT_KatzModel.h | 22 +++
src/AT_MultipleCoulombScattering.c | 4
src/Makevars | 2
src/Makevars.in | 2
src/Makevars.win | 1
src/config.h | 10 -
76 files changed, 184 insertions(+), 161 deletions(-)
Title: R functions for Generalized Simulated Annealing
Diff between GenSA versions 1.1.2 dated 2012-11-07 and 1.1.3 dated 2013-01-23
Description: This package searches for global minimum of a very complex
non-linear objective function with a very large number of
optima.
Author: Sylvain Gubian, Yang Xiang, Brian Suomela, Julia Hoeng, PMP SA.
Maintainer: Sylvain Gubian
DESCRIPTION | 8 ++++----
MD5 | 12 ++++++------
NEWS | 6 ++++++
R/GenSA.R | 13 +++++++++++--
man/GenSA-package.Rd | 5 +----
man/GenSA.Rd | 14 ++++++++------
src/Caller.cpp | 4 ++--
7 files changed, 38 insertions(+), 24 deletions(-)
Title: Visualizing Generalized Canonical Discriminant and Canonical
Correlation Analysis
Diff between candisc versions 0.5-21 dated 2011-12-11 and 0.6-0 dated 2013-01-23
Description: This package includes functions for computing and
visualizing generalized canonical discriminant analyses for a
multivariate linear model. Traditional canonical discriminant
analysis is restricted to a one-way MANOVA design and is
equivalent to canonical correlation analysis between a set of
quantitative response variables and a set of dummy variables
coded from the factor variable. The candisc package
generalizes this to multi-way MANOVA designs for all factors in
a multivariate linear model, computing canonical scores and
vectors for each term. The graphic functions provide low-rank
(1D, 2D, 3D) visualizations of terms in an mlm via the
plot.candisc and heplot.candisc methods.
Author: Michael Friendly and John Fox
Maintainer: Michael Friendly
candisc-0.5-21/candisc/.project |only
candisc-0.6-0/candisc/DESCRIPTION | 28 +++++++++++++++------
candisc-0.6-0/candisc/MD5 | 28 +++++++++++++--------
candisc-0.6-0/candisc/NAMESPACE | 13 +++++++++-
candisc-0.6-0/candisc/NEWS | 13 ++++++++++
candisc-0.6-0/candisc/R/Wilks.cancor.R |only
candisc-0.6-0/candisc/R/cancor.R |only
candisc-0.6-0/candisc/R/candisc.R | 17 ++++++-------
candisc-0.6-0/candisc/R/heplot.cancor.R |only
candisc-0.6-0/candisc/R/heplot.candisc.R | 35 ++++++++++++++++-----------
candisc-0.6-0/candisc/R/vectors.R |only
candisc-0.6-0/candisc/data/Grass.rda |binary
candisc-0.6-0/candisc/data/HSB.rda |binary
candisc-0.6-0/candisc/data/Wolves.rda |binary
candisc-0.6-0/candisc/man/Wilks.Rd |only
candisc-0.6-0/candisc/man/cancor.Rd |only
candisc-0.6-0/candisc/man/candisc-package.Rd | 22 +++++++++++++---
candisc-0.6-0/candisc/man/heplot.cancor.Rd |only
candisc-0.6-0/candisc/man/heplot.candisc.Rd | 9 +++++-
candisc-0.6-0/candisc/man/vectors.Rd |only
20 files changed, 117 insertions(+), 48 deletions(-)
Title: Rcmdr support for the HH package
Diff between RcmdrPlugin.HH versions 1.1-30 dated 2011-12-28 and 1.1-38 dated 2013-01-23
More information about RcmdrPlugin.HH at CRAN
Description: Rcmdr menu support for many of the functions in the HH
package. The focus is on menu items for functions we use in
our introductory courses.
Author: Richard M. Heiberger, with contributions from Burt Holland
Maintainer: Richard M. Heiberger
DESCRIPTION | 20 +
MD5 | 32 +-
NAMESPACE | 18 -
R/Lattice.HH.R |only
R/LikertFormula.R |only
R/Xyplot.HH.R | 417 +++++++++++++++++++++-----------------
R/analyzeTwoWayTable.HH.R | 9
R/bestSubsetsRegressionModel.HH.R | 9
R/confidenceIntervalsPlot.R | 3
R/enterTable.HH.R | 10
R/globals.R |only
R/likert.R | 76 +++++-
R/scatter3d.HH.R | 118 +++++-----
R/twoWayTable.HH.R | 131 ++++++-----
R/zzz.R | 32 ++
inst/etc/menus.txt | 18 -
man/Xyplot.HH.Rd | 15 +
man/latticeFunctions.Rd |only
man/likert.Rd | 17 +
19 files changed, 528 insertions(+), 397 deletions(-)
Permanent link
Title: Fitting finite mixture of scale mixture of skew-normal
distributions .
Diff between mixsmsn versions 1.0-3 dated 2012-10-26 and 1.0-4 dated 2013-01-23
Description: Functions to fit finite mixture of scale mixture of
skew-normal (FM-SMSN) distributions.
Author: Marcos Prates
Maintainer: Marcos Prates
ChangeLog | 4 ++++
DESCRIPTION | 6 +++---
MD5 | 10 ++++++----
NAMESPACE | 1 +
R/mix.dens.R |only
man/mix.dens.Rd |only
man/smsn.mix.Rd | 9 +++++++--
7 files changed, 21 insertions(+), 9 deletions(-)
More information about pmmlTransformations at CRAN
Permanent link
Title: Sample size calculations for longitudinal data
Diff between longpower versions 1.0-3 dated 2013-01-11 and 1.0-4 dated 2013-01-23
Description: The longpower package contains functions for computing
power and sample size for linear models of longitudinal data
based on the formula due to Liu and Liang (1997) and Diggle et
al (2002). Either formula is expressed in terms of marginal
model or Generalized Estimating Equations (GEE) parameters.
This package contains functions which translate pilot mixed
effect model parameters (e.g. random intercept and/or slope)
into marginal model parameters so that the formulas of Diggle
et al or Liu and Liang formula can be applied to produce sample
size calculations for two sample longitudinal designs assuming
known variance.
Author: Michael C. Donohue, Anthony C. Gamst, Steven D. Edland
Maintainer: Michael C. Donohue
DESCRIPTION | 8 ++---
MD5 | 18 +++++------
R/diggle.linear.power.R | 4 +-
R/edland.linear.power.R | 4 +-
R/liu.liang.linear.power.R | 35 ++++++++++++----------
R/lmmpower.R | 15 +++++----
R/power_mmrm.R | 12 +++----
inst/doc/longpower.Rnw | 2 -
inst/doc/longpower.pdf |binary
man/liu.liang.linear.power.Rd | 64 ++++++++++++++++++++++++++++++++++++++----
10 files changed, 109 insertions(+), 53 deletions(-)
Title: Citations for knitr markdown files
Diff between knitcitations versions 0.1-0 dated 2012-07-27 and 0.2-0 dated 2013-01-23
Description: While traditional Sweave documents can take advantage of
LaTeX citation tools, knitr also allows users to combine the
much simpler markdown with R code. This package offers
citation tools to make up for this. This package will also
take advantage of the web-based nature of markdown documents to
allow dynamic citations pulled from the web.
Author: Carl Boettiger [aut, cre]
Maintainer: Carl Boettiger
knitcitations-0.1-0/knitcitations/R/bibtex_io.R |only
knitcitations-0.1-0/knitcitations/R/citations.R |only
knitcitations-0.1-0/knitcitations/inst/doc |only
knitcitations-0.1-0/knitcitations/inst/examples/elsarticle.latex |only
knitcitations-0.1-0/knitcitations/refs.bib |only
knitcitations-0.1-0/knitcitations/vignettes |only
knitcitations-0.2-0/knitcitations/DESCRIPTION | 13 -
knitcitations-0.2-0/knitcitations/MD5 | 43 ++-
knitcitations-0.2-0/knitcitations/NEWS | 6
knitcitations-0.2-0/knitcitations/R/bibliography.R | 20 -
knitcitations-0.2-0/knitcitations/R/cite.R | 122 +++-------
knitcitations-0.2-0/knitcitations/R/citep.R |only
knitcitations-0.2-0/knitcitations/R/citet.R |only
knitcitations-0.2-0/knitcitations/R/cleanbib.R |only
knitcitations-0.2-0/knitcitations/R/create_bibkey.R | 4
knitcitations-0.2-0/knitcitations/R/formatref.R | 11
knitcitations-0.2-0/knitcitations/R/init_knitbib.R |only
knitcitations-0.2-0/knitcitations/R/print_rdfa.R |only
knitcitations-0.2-0/knitcitations/R/read.bibtex.R |only
knitcitations-0.2-0/knitcitations/R/write.bibtex.R |only
knitcitations-0.2-0/knitcitations/R/zzz.R |only
knitcitations-0.2-0/knitcitations/inst/examples/citations.Rmd | 4
knitcitations-0.2-0/knitcitations/inst/examples/citations.html |only
knitcitations-0.2-0/knitcitations/inst/examples/citations.md | 99 +-------
knitcitations-0.2-0/knitcitations/inst/examples/example.bib |only
knitcitations-0.2-0/knitcitations/inst/examples/knitcitations.bib |only
knitcitations-0.2-0/knitcitations/inst/examples/refs.bib |only
knitcitations-0.2-0/knitcitations/inst/examples/test.xml |only
knitcitations-0.2-0/knitcitations/man/citet.Rd | 7
knitcitations-0.2-0/knitcitations/man/create_bibkey.Rd | 1
knitcitations-0.2-0/knitcitations/man/formatref.Rd | 1
knitcitations-0.2-0/knitcitations/man/knitcitations_data.Rd |only
32 files changed, 131 insertions(+), 200 deletions(-)
Title: Clinical Trial Design and Data Analysis Functions
Diff between clinfun versions 1.0.3 dated 2012-10-15 and 1.0.4 dated 2013-01-23
Description: Utilities to make your clinical collaborations easier if
not fun.
Author: Venkatraman E. Seshan
Maintainer: Venkatraman E. Seshan
CHANGES | 5 +++++
DESCRIPTION | 6 +++---
MD5 | 10 +++++-----
R/gsdesign.R | 19 +++++++++++++++----
man/gsdesign.Rd | 11 ++++++++++-
man/ktau.Rd | 2 +-
6 files changed, 39 insertions(+), 14 deletions(-)