Author: Dan Rabosky
Title: Likelihood Analysis of Speciation/Extinction Rates from
Phylogenies
Description: laser implements maximum likelihood methods based on the
birth-death process to test whether diversification rates have
changed over time and whether rates vary among lineages.
Diff between laser versions 2.2 dated 2008-09-22 and 2.3 dated 2009-08-30
DESCRIPTION | 20 +++++++++++------- R/mccrTest.R | 46 ++++++++++++++++++++++--------------------- man/laser-package.Rd | 2 - man/plotNodeNumbers.phylo.Rd | 2 - man/plotRate.Rd | 2 - 5 files changed, 36 insertions(+), 36 deletions(-)
Author: Ralf Strobl
Diff between km.ci versions 0.5-1 dated 2007-10-21 and 0.5-2 dated 2009-08-30
Title: Confidence intervals for the Kaplan-Meier estimator
Description: Computes various confidence intervals for the Kaplan-Meier
estimator, namely: Petos CI, Rothman CI, CI's based on
Greenwoods variance, Thomas and Grunkemeier CI and the
simultaneous confidence bands by Nair and Hall and Wellner.
DESCRIPTION | 15 ++++++++++-----
man/km.ci.Rd | 10 ++++++----
2 files changed, 16 insertions(+), 9 deletions(-)
Author: Jan de Leeuw, Kurt Hornik, Patrick Mair
Title: Active set and generalized PAVA for isotone optimization
Description: This package contains two main functions: gpava() for
solving general isotone regression problem using the
pool-adjacent-violators algorithm (PAVA). activeSet() provides
a framework of active set methods for isotone optimization
problems. Various loss functions are pre-spcified.
Diff between isotone versions 0.8-1 dated 2009-03-26 and 0.8-6 dated 2009-08-30
isotone-0.8-1/isotone/inst/doc/isotone-004.eps |only isotone-0.8-1/isotone/inst/doc/isotone-004.pdf |only isotone-0.8-1/isotone/inst/doc/isotone-008.eps |only isotone-0.8-1/isotone/inst/doc/isotone-008.pdf |only isotone-0.8-1/isotone/inst/doc/pava-004.eps |only isotone-0.8-1/isotone/inst/doc/pava-004.pdf |only isotone-0.8-1/isotone/inst/doc/pava-008.eps |only isotone-0.8-1/isotone/inst/doc/pava-008.pdf |only isotone-0.8-6/isotone/DESCRIPTION | 13 isotone-0.8-6/isotone/R/aSolver.R | 1 isotone-0.8-6/isotone/R/activeSet.R | 50 ++ isotone-0.8-6/isotone/R/dSolver.R | 3 isotone-0.8-6/isotone/R/eSolver.R | 1 isotone-0.8-6/isotone/R/fSolver.R | 1 isotone-0.8-6/isotone/R/gpava.R | 10 isotone-0.8-6/isotone/R/hSolver.R | 1 isotone-0.8-6/isotone/R/iSolver.R | 2 isotone-0.8-6/isotone/R/lfSolver.R | 3 isotone-0.8-6/isotone/R/lsSolver.R | 7 isotone-0.8-6/isotone/R/mSolver.R | 3 isotone-0.8-6/isotone/R/oSolver.R | 1 isotone-0.8-6/isotone/R/pSolver.R | 3 isotone-0.8-6/isotone/R/print.activeset.R | 8 isotone-0.8-6/isotone/R/sSolver.R | 4 isotone-0.8-6/isotone/R/weighted.fractile.R | 4 isotone-0.8-6/isotone/inst/doc/isotone.Rnw | 512 ++++++++++--------------- isotone-0.8-6/isotone/inst/doc/isotone.pdf |binary isotone-0.8-6/isotone/man/aSolver.Rd | 3 isotone-0.8-6/isotone/man/activeSet.Rd | 65 +-- isotone-0.8-6/isotone/man/dSolver.Rd | 3 isotone-0.8-6/isotone/man/eSolver.Rd | 3 isotone-0.8-6/isotone/man/fSolver.Rd | 3 isotone-0.8-6/isotone/man/gpava.Rd | 16 isotone-0.8-6/isotone/man/hSolver.Rd | 5 isotone-0.8-6/isotone/man/iSolver.Rd | 3 isotone-0.8-6/isotone/man/lfSolver.Rd | 3 isotone-0.8-6/isotone/man/lsSolver.Rd | 3 isotone-0.8-6/isotone/man/mSolver.Rd | 3 isotone-0.8-6/isotone/man/oSolver.Rd | 13 isotone-0.8-6/isotone/man/pSolver.Rd | 3 isotone-0.8-6/isotone/man/sSolver.Rd | 10 isotone-0.8-6/isotone/man/weighted.fractile.Rd |only isotone-0.8-6/isotone/man/weighted.median.Rd |only 43 files changed, 352 insertions(+), 411 deletions(-)
Author: Rob J Hyndman
Diff between forecasting versions 1.25 dated 2009-07-22 and 1.26 dated 2009-08-30
Bundle: forecasting
Contains: forecast fma Mcomp expsmooth
DESCRIPTION | 10 ++--
forecast/ChangeLog |only
forecast/NAMESPACE | 6 --
forecast/R/forecast.R | 92 ++++++++++++++++++++++++++++++++------
forecast/R/forecast2.R | 8 ---
forecast/man/arima.errors.Rd | 2
forecast/man/auto.arima.Rd | 6 --
forecast/man/fitted.Arima.Rd | 2
forecast/man/forecast.Arima.Rd | 6 --
forecast/man/forecast.StructTS.Rd | 7 +-
forecast/man/forecastplot.Rd | 2
forecast/man/na.interp.Rd | 5 --
forecast/man/numberdiffs.Rd | 3 -
forecast/man/seasonal.dummy.Rd | 5 --
forecast/man/seasonplot.Rd | 4 -
forecast/man/spline.f.Rd | 2
forecast/man/ts.display.Rd | 2
17 files changed, 102 insertions(+), 60 deletions(-)
Author: Patrick Mair, Eric Wu
Title: R/EQS Interface
Description: This package contains the function run.eqs() which calls
an EQS script file, executes the EQS estimation, and, finally,
imports the results as R objects. These two steps can be
performed separately: call.eqs() calls and executes EQS,
whereas read.eqs() imports existing EQS outputs as objects into
R.
Diff between REQS versions 0.8-1 dated 2009-08-01 and 0.8-4 dated 2009-08-30
DESCRIPTION | 8 ++++---- R/call.eqs.R | 11 ++++++----- R/read.eqs.R | 4 ++-- 3 files changed, 12 insertions(+), 11 deletions(-)
Author: John Fox
Diff between Rcmdr versions 1.4-10 dated 2009-04-27 and 1.5-1 dated 2009-08-30
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical
user interface) for R, based on the tcltk package.
DESCRIPTION | 24
NAMESPACE | 15
R/commander.R | 25
R/data-menu.R | 3377 ++++++++++++++++++-----------------
R/file-menu.R | 33
R/graphs-menu.R | 13
R/ismdi.R |only
R/model-menu.R | 123 +
R/sciviews-specific.R | 5
R/startup.R | 6
R/statistics-dimensional-menu.R | 3
R/statistics-means-menu.R | 18
R/statistics-models-menu.R | 6
R/statistics-proportions-menu.R | 6
R/statistics-summaries-menu.R | 184 +
R/statistics-tables-menu.R | 8
R/utilities.R | 753 +++++--
inst/CHANGES | 38
inst/etc/Rcmdr-menus.txt | 8
inst/etc/linux/Rcmdr.desktop | 2
inst/po/pt_BR/LC_MESSAGES/R-Rcmdr.mo |binary
man/Commander-es.Rd | 3
man/Commander.Rd | 48
man/Rcmdr-package.Rd | 6
man/Rcmdr.Utilities.Rd | 30
man/Scatter3DDialog.Rd | 2
man/generalizedLinearModel.Rd | 3
man/hierarchicalCluster.Rd | 2
man/linearModel.Rd | 3
man/mergeRows.Rd |only
man/rcorr.adjust.Rd |only
man/reliability.Rd | 2
man/scatter3d.Rd | 2
man/stepwise.Rd |only
po/R-Rcmdr.pot | 151 +
src |only
36 files changed, 2849 insertions(+), 2050 deletions(-)