Title: Binomial linear and linear-expit regression
Description: Implements regression models for binary data on the
absolute risk scale. These models are applicable to cohort and
population-based case-control data.
Author: S. Kovalchik
Maintainer: S.Kovalchik
Diff between blm versions 2012.2.1 dated 2012-05-19 and 2012.2.2 dated 2012-10-06
blm-2012.2.1/blm/R/predict.R |only blm-2012.2.1/blm/inst/doc/.Rapp.history |only blm-2012.2.1/blm/inst/doc/blm.Rnw |only blm-2012.2.1/blm/inst/doc/blm.pdf |only blm-2012.2.1/blm/inst/doc/influence.pdf |only blm-2012.2.2/blm/DESCRIPTION | 10 - blm-2012.2.2/blm/MD5 | 59 ++++-- blm-2012.2.2/blm/NAMESPACE | 6 blm-2012.2.2/blm/NEWS | 18 + blm-2012.2.2/blm/R/blm.R | 49 ++--- blm-2012.2.2/blm/R/blm.cohort.R |only blm-2012.2.2/blm/R/blm.lrt.R |only blm-2012.2.2/blm/R/class.R | 23 +- blm-2012.2.2/blm/R/excess.risk.R |only blm-2012.2.2/blm/R/helpers.R | 5 blm-2012.2.2/blm/R/influence.R | 185 +++++++++---------- blm-2012.2.2/blm/R/lexpit.R | 67 +++--- blm-2012.2.2/blm/R/lexpit.lrt.R |only blm-2012.2.2/blm/R/optim.lexpit.R | 36 +++ blm-2012.2.2/blm/R/predict.se.blm.R |only blm-2012.2.2/blm/R/which.constrained.R | 6 blm-2012.2.2/blm/dev/LRT.R |only blm-2012.2.2/blm/dev/blm.lrt.R |only blm-2012.2.2/blm/dev/influence.R |only blm-2012.2.2/blm/dev/lexpit.lrt.R |only blm-2012.2.2/blm/dev/likelihood_equations.aux |only blm-2012.2.2/blm/dev/likelihood_equations.log |only blm-2012.2.2/blm/dev/likelihood_equations.pdf |only blm-2012.2.2/blm/dev/likelihood_equations.synctex.gz |only blm-2012.2.2/blm/dev/likelihood_equations.tex |only blm-2012.2.2/blm/dev/predict.R |only blm-2012.2.2/blm/dev/predict.se.blm.R |only blm-2012.2.2/blm/inst/doc/blm_knit.pdf |only blm-2012.2.2/blm/man/LRT.Rd |only blm-2012.2.2/blm/man/blm-class.Rd | 6 blm-2012.2.2/blm/man/blm.Rd | 6 blm-2012.2.2/blm/man/dbeta.Rd | 25 +- blm-2012.2.2/blm/man/displacement.Rd |only blm-2012.2.2/blm/man/excess.risk.Rd |only blm-2012.2.2/blm/man/lexpit-class.Rd | 6 blm-2012.2.2/blm/man/lexpit.Rd | 7 blm-2012.2.2/blm/man/predict.Rd | 6 blm-2012.2.2/blm/vignettes |only 43 files changed, 302 insertions(+), 218 deletions(-)
Title: S3 Infrastructure for Regular and Irregular Time Series (Z's
ordered observations)
Description: An S3 class with methods for totally ordered indexed
observations. It is particularly aimed at irregular time series
of numeric vectors/matrices and factors. zoo's key design goals
are independence of a particular index/date/time class and
consistency with ts and base R by providing methods to extend
standard generics.
Author: Achim Zeileis [aut, cre], Gabor Grothendieck [aut], Jeffrey A.
Ryan [aut], Felix Andrews [ctb]
Maintainer: Achim Zeileis
Diff between zoo versions 1.7-7 dated 2012-02-10 and 1.7-8 dated 2012-10-06
zoo-1.7-7/zoo/inst/doc/zoo-refcard-raw.tex |only zoo-1.7-7/zoo/inst/doc/zoo-refcard.pdf |only zoo-1.7-7/zoo/inst/doc/zoo-refcard.tex |only zoo-1.7-7/zoo/inst/doc/zoo.bib |only zoo-1.7-8/zoo/DESCRIPTION | 8 +-- zoo-1.7-8/zoo/MD5 | 58 ++++++++++++++----------- zoo-1.7-8/zoo/NAMESPACE | 3 + zoo-1.7-8/zoo/NEWS | 7 +++ zoo-1.7-8/zoo/R/na.spline.R | 2 zoo-1.7-8/zoo/R/rollapply.R | 2 zoo-1.7-8/zoo/R/rollmean.R | 60 +++++++++++++++++++++++++- zoo-1.7-8/zoo/R/zoo.R | 9 +-- zoo-1.7-8/zoo/TODO |only zoo-1.7-8/zoo/inst/doc/zoo-design.pdf |binary zoo-1.7-8/zoo/inst/doc/zoo-faq.pdf |binary zoo-1.7-8/zoo/inst/doc/zoo-quickref.pdf |binary zoo-1.7-8/zoo/inst/doc/zoo-read.pdf |binary zoo-1.7-8/zoo/inst/doc/zoo.pdf |binary zoo-1.7-8/zoo/man/rollmean.Rd | 8 +++ zoo-1.7-8/zoo/man/zoo.Rd | 14 +++--- zoo-1.7-8/zoo/src/init.c | 2 zoo-1.7-8/zoo/src/lag.c | 4 - zoo-1.7-8/zoo/tests/Examples/zoo-Ex.Rout.save | 13 +++-- zoo-1.7-8/zoo/tests/bugfixes.R | 14 ++++++ zoo-1.7-8/zoo/tests/bugfixes.Rout.save | 24 +++++++++- zoo-1.7-8/zoo/tests/vignette-zoo.Rout.save | 18 ++++++- zoo-1.7-8/zoo/vignettes |only 27 files changed, 190 insertions(+), 56 deletions(-)
Title: Paleontological and Phylogenetic Analyses of Evolution
Description: Analyzes, time-scales and simulates phylogenies of
extinct/fossil lineages, along with calculation of diversity
curves. Also fits likelihood models to estimate sampling rates
from stratigraphic ranges.
Author: David Bapst
Maintainer: David Bapst
Diff between paleotree versions 1.4 dated 2012-06-18 and 1.5 dated 2012-10-06
ChangeLog | 13 DESCRIPTION | 8 MD5 | 31 + NAMESPACE | 2 R/functions_master.R | 774 ++++++++++++++++++++++++++++++++++++++++------ inst/CITATION | 6 man/binTimeData.Rd | 18 + man/cal3Timescaling.Rd |only man/compareTimescaling.Rd | 26 + man/degradeTree.Rd | 4 man/freqRat.Rd |only man/getSampProbDisc.Rd | 2 man/paleotree-package.Rd | 4 man/reverseList.Rd |only man/rootSplit.Rd |only man/simFossilTaxa.Rd | 6 man/srcTimescaling.Rd | 14 man/timeLadderTree.Rd |only man/timePaleoPhy.Rd | 27 + 19 files changed, 795 insertions(+), 140 deletions(-)
Title: Estimate a Log-Concave Probability Mass function from Discrete
i.i.d. Observations
Description: Given independent and identically distributed observations
X(1), ..., X(n), this package allows to compute the maximum
likelihood estimator (MLE) of probability mass function (pmf)
under the assumption that it is log-concave, see Weyermann
(2007) and Balabdaoui, Jankowski, Rufibach, and Pavlides
(2012). The main functions of the package are 'logConDiscrMLE'
that allows computation of the log-concave MLE, 'logConDiscrCI'
that computes pointwise confidence bands for the MLE, and
'kInflatedLogConDiscr' that computes a mixture of a log-concave
PMF and a point mass at k.
Author: Kaspar Rufibach
Maintainer: Kaspar Rufibach
Diff between logcondiscr versions 1.0.2 dated 2012-01-24 and 1.0.3 dated 2012-10-06
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 4 ++++ R/logConDiscrCI.r | 10 +++++----- man/logcondiscr-package.Rd | 4 ++-- 5 files changed, 19 insertions(+), 15 deletions(-)
Title: Extreme value toolkit.
Description: This toolkit provides a Graphical User Interface (GUI) to
various functions for doing extreme value analysis.
Author: Eric Gilleland, Rick Katz, Greg Young
Maintainer: Eric Gilleland
Diff between extRemes versions 1.64 dated 2011-12-19 and 1.65 dated 2012-10-06
DESCRIPTION | 13 +-- MD5 | 150 ++++++++++++++++++----------------- R/DataSummaryGUI.R | 2 R/affine.gui.R | 2 R/decluster.gui.R | 2 R/decluster.intervals.R | 11 +- R/decluster.runs.R | 35 +++++++- R/diagnostic.plots.R | 3 R/exi.intervals.R | 23 +++-- R/extremalind.gui.R | 2 R/extremes.gui.R | 2 R/fitdiag.gui.R | 2 R/fitsummary.gui.R | 2 R/gev.parameterCI.R | 2 R/gevf.gui.R | 2 R/gevparamCI.gui.R | 2 R/gpd.parameterCI.R | 2 R/gpd.rl2.R | 3 R/gpdf.gui.R | 2 R/gpdfitrange.gui.R | 2 R/gpdparamCI.gui.R | 2 R/histogram.gui.R | 2 R/indicatorTransform.gui.R | 2 R/llhrt.gui.R | 2 R/logdr.gui.R | 2 R/logtrans.gui.R | 2 R/mrlplot.gui.R | 2 R/negtrans.gui.R | 2 R/poisson.gui.R | 4 R/ppfit.gui.R | 2 R/ppfitrange.gui.R | 2 R/quantiles.R | 180 ++++++++++++++++++++++++++++--------------- R/return.level.R | 31 ++++++- R/rlargf.gui.R | 2 R/rlplot.R | 3 R/rlplot.gui.R | 2 R/scatterplot.gui.R | 2 R/scrubber.gui.R | 2 R/trigtrans.gui.R | 2 data/FCwx.rda |only data/datalist | 1 inst/CITATION | 2 man/Denversp.Rd | 7 - man/FCwx.Rd |only man/Flood.Rd | 17 +--- man/FtCoPrec.Rd | 9 -- man/HEAT.Rd | 12 -- man/Ozone4H.Rd | 39 +-------- man/PORTw.Rd | 13 --- man/Peak.Rd | 12 +- man/Potomac.Rd | 13 +-- man/Rsum.Rd | 17 +--- man/Tphap.Rd | 16 --- man/as.extRemesDataObject.Rd | 13 +-- man/bisearch.Rd | 10 -- man/boot.matrix.Rd | 4 man/boot.sequence.Rd | 21 ++--- man/clearlog.Rd | 6 - man/damage.Rd | 12 -- man/dclust.Rd | 25 +---- man/decluster.runs.Rd | 40 +++++---- man/eiAnalyze.Rd | 33 +++---- man/exi.intervals.Rd | 33 +++++-- man/extRemes.Rd | 2 man/extremalindex.Rd | 17 +--- man/extremes.gui.Rd | 17 +--- man/ftcanmax.Rd | 13 --- man/gen.gev.Rd | 24 ++--- man/gev.effective.rl.Rd | 96 ++++++++-------------- man/gev.parameterCI.Rd | 29 ++---- man/gevrlgradient.Rd | 18 ++-- man/gpdrlgradient.Rd | 14 +-- man/qqnorm.Rd | 18 ++-- man/qqplot.Rd | 39 +++++++-- man/return.level.Rd | 32 ++----- man/rlplot.Rd | 20 ---- man/shiftplot.Rd | 8 - 77 files changed, 599 insertions(+), 615 deletions(-)