Author: Benjamin Haibe-Kains, Christos Sotiriou, Gianluca Bontempi
Title: Performance Assessment and Comparison for Survival Analysis
Description: R package providing functions to assess and to compare the
performance of risk prediction (survival) models.
Diff between survcomp versions 1.1.0 dated 2009-04-22 and 1.1.2 dated 2009-06-05
DESCRIPTION | 9 +++++---- R/fisherz.R | 6 +++--- R/km.coxph.plot.R |only R/no.at.risk.R |only R/td.sens.spec.R |only man/D.index.Rd | 2 +- man/fisherz.Rd | 3 ++- man/hazard.ratio.Rd | 2 +- man/km.coxph.plot.Rd |only man/no.at.risk.Rd |only man/survcomp-package.Rd | 4 ++-- man/td.sens.spec.Rd |only man/tdrocc.Rd | 38 +++++++++++++++++++------------------- 13 files changed, 33 insertions(+), 31 deletions(-)
Author: Roger Bivand and Danlin Yu
Title: Geographically weighted regression
Description: Functions for computing geographically weighted
regressions based on work by Chris Brunsdon, Martin Charlton
and Stewart Fortheringham, http://ncg.nuim.ie/ncg/GWR/index.htm
Diff between spgwr versions 0.5-7 dated 2009-03-24 and 0.5-10 dated 2009-06-05
ChangeLog | 25 ++++++++++++++++ DESCRIPTION | 8 ++--- R/gwr.R | 86 ++++++++++++++++++++++++++++++++++++++++++++++++++------- inst/ChangeLog | 25 ++++++++++++++++ man/gwr.Rd | 18 ++++++++++- 5 files changed, 146 insertions(+), 16 deletions(-)
Author: R by Meinhard Ploner,Fortran by Georg Heinze
Title: Weighted Cox regression
Description: Weighted estimation for Cox regression
Diff between coxphw versions 1.1 dated 2008-07-28 and 1.3 dated 2009-06-05
DESCRIPTION | 24 ++++++++++-------- R/coxphw.r | 17 ++++++++++--- man/coxphw.Rd | 9 ++++-- src/coxphw.f90 | 74 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++ 4 files changed, 107 insertions(+), 17 deletions(-)
Author: Max Kuhn. Contributions from Jed Wing, Steve Weston, Andre
Williams, Chris Keefer and Allan Engelhardt
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification
and regression models
Diff between caret versions 4.16 dated 2009-05-24 and 4.17 dated 2009-06-05
caret-4.16/caret/R/makeCubistFiles.R |only caret-4.17/caret/DESCRIPTION | 12 +++++---- caret-4.17/caret/R/bagFDA.R | 34 +++++++++++++-------------- caret-4.17/caret/R/nearZeroVar.R | 33 ++++++++++++++++++++++++-- caret-4.17/caret/inst/doc/caretMisc.tex |only caret-4.17/caret/inst/doc/caretSelection.tex |only caret-4.17/caret/inst/doc/caretTrain.Rnw | 12 +++++++-- caret-4.17/caret/inst/doc/caretTrain.tex |only caret-4.17/caret/inst/doc/caretVarImp.tex |only caret-4.17/caret/man/nearZeroVar.Rd | 2 - caret-4.17/caret/man/train.Rd | 12 +++++---- 11 files changed, 72 insertions(+), 33 deletions(-)
Author: Volkmar Henschel, Christiane Heiss, Ulrich Mansmann
Diff between survBayes versions 0.2.1.1 dated 2009-02-23 and 0.2.2 dated 2009-06-05
Title: Fits a proportional hazards model to time to event data by a
Bayesian approach
Description: Fits a proportional hazards model to time to event data by
a Bayesian approach. Right and interval censored data and a
lognormal frailty term can be fitted.
survBayes-0.2.1.1/survBayes/data/aneurism.data.rda |only
survBayes-0.2.1.1/survBayes/man/aneurism.data.Rd |only
survBayes-0.2.1.1/survBayes/man/survBayes-package.Rd |only
survBayes-0.2.2/survBayes/DESCRIPTION | 28
survBayes-0.2.2/survBayes/R/survBayes.KM.int.R | 3
survBayes-0.2.2/survBayes/R/survBayes.R | 26
survBayes-0.2.2/survBayes/R/survBayes.b.fctn.Lambda.lin.R | 3
survBayes-0.2.2/survBayes/R/survBayes.b.fctn.Lambda.quad.a.R | 3
survBayes-0.2.2/survBayes/R/survBayes.b.fctn.Lambda.quad.b.R | 3
survBayes-0.2.2/survBayes/R/survBayes.b.fctn.Lambda.quad.c.R | 3
survBayes-0.2.2/survBayes/R/survBayes.b.fctn.Lambda.quad.d.R | 3
survBayes-0.2.2/survBayes/R/survBayes.base.R | 11
survBayes-0.2.2/survBayes/R/survBayes.baseline.hazard.R | 101 -
survBayes-0.2.2/survBayes/R/survBayes.control.R | 36
survBayes-0.2.2/survBayes/R/survBayes.control.gamma.frailty.R | 3
survBayes-0.2.2/survBayes/R/survBayes.control.lognormal.frailty.R | 3
survBayes-0.2.2/survBayes/R/survBayes.draw.cond.pw.lin.exp.R | 3
survBayes-0.2.2/survBayes/R/survBayes.int.basis.R | 3
survBayes-0.2.2/survBayes/R/survBayes.poisson.update.R | 3
survBayes-0.2.2/survBayes/R/survBayes.taylor.R | 3
survBayes-0.2.2/survBayes/R/survBayes.time.basis.R | 3
survBayes-0.2.2/survBayes/data/AA.data.rda |only
survBayes-0.2.2/survBayes/inst/doc/Rplots.pdf |only
survBayes-0.2.2/survBayes/inst/doc/Rplots.ps | 890 +++++++++-
survBayes-0.2.2/survBayes/inst/doc/survBayes.Rnw | 173 -
survBayes-0.2.2/survBayes/inst/doc/survBayes.pdf |binary
survBayes-0.2.2/survBayes/man/AA.data.Rd |only
survBayes-0.2.2/survBayes/man/survBayes.Rd | 20
survBayes-0.2.2/survBayes/man/survBayes.baseline.hazard.Rd | 14
survBayes-0.2.2/survBayes/man/survBayes.control.Rd | 18
survBayes-0.2.2/survBayes/man/survBayes.control.gamma.frailty.Rd | 3
survBayes-0.2.2/survBayes/man/survBayes.control.lognormal.frailty.Rd | 3
32 files changed, 1024 insertions(+), 338 deletions(-)
Author: Nikon Systems Inc.
Diff between rimage versions 0.5-7 dated 2005-01-12 and 0.5-8 dated 2009-06-05
Title: Image Processing Module for R
Description: This package provides functions for image processing,
including sobel filter, rank filters, fft, histogram
equalization, and reading JPEG file. This package requires
fftw-2
rimage-0.5-7/rimage/src/libfftw.a |only
rimage-0.5-7/rimage/src/libjpeg.a |only
rimage-0.5-8/rimage/DESCRIPTION | 19 +++++++++++--------
rimage-0.5-8/rimage/man/cat.Rd | 11 ++++++-----
rimage-0.5-8/rimage/man/plot.imagematrix.Rd | 2 +-
rimage-0.5-8/rimage/man/print.imagematrix.Rd | 2 +-
rimage-0.5-8/rimage/src/fftw_access_func.c | 4 ++--
rimage-0.5-8/rimage/src/laplacian.c | 2 ++
rimage-0.5-8/rimage/src/matrix.cpp | 22 ++++++++++++++++++----
9 files changed, 41 insertions(+), 21 deletions(-)
Author: Kaspar Rufibach
Diff between logcondens versions 1.3.3 dated 2009-03-04 and 1.3.4 dated 2009-06-05
Title: Estimate a Log-Concave Probability Density from iid Observations
Description: Given independent and identically distributed observations
X(1), ..., X(n), this package allows to compute a concave,
piecewise linear function phi on [X(1), X(n)] with knots only
in {X(1), X(2), ..., X(n)} such that L(phi) = sum_{i=1}^n
W(i)*phi(X(i)) - int_{X(1)}^{X(n)} exp(phi(x)) dx is maximal,
for some weights W(1), ..., W(n) s.t. sum_{i=1}^n W(i) = 1.
According to the results in Duembgen and Rufibach (2009), this
function phi maximizes the ordinary log-likelihood sum_{i=1}^n
W(i)*phi(X(i)) under the constraint that phi is concave. The
corresponding function exp(phi) is a log-concave probability
density. Two algorithms are offered: An active set algorithm
and one based on the pool-adjacent-violaters algorithm.
logcondens-1.3.3/logcondens/inst/doc/index.html |only
logcondens-1.3.3/logcondens/inst/doc/logcondens_vignette.pdf |only
logcondens-1.3.4/logcondens/CHANGES | 4 +
logcondens-1.3.4/logcondens/DESCRIPTION | 43 ++++++-----
logcondens-1.3.4/logcondens/R/J00.R | 2
logcondens-1.3.4/logcondens/R/J10.R | 2
logcondens-1.3.4/logcondens/R/J11.R | 2
logcondens-1.3.4/logcondens/R/J20.R | 2
logcondens-1.3.4/logcondens/R/Lhat_eta.R | 2
logcondens-1.3.4/logcondens/R/LocalCoarsen.R | 4 -
logcondens-1.3.4/logcondens/R/LocalConvexity.R | 2
logcondens-1.3.4/logcondens/R/LocalExtend.R | 2
logcondens-1.3.4/logcondens/R/LocalF.R | 2
logcondens-1.3.4/logcondens/R/LocalMLE.R | 7 +
logcondens-1.3.4/logcondens/R/LocalNormalize.R | 2
logcondens-1.3.4/logcondens/R/Local_LL.R | 2
logcondens-1.3.4/logcondens/R/Local_LL_all.R | 2
logcondens-1.3.4/logcondens/R/MLE.R | 11 +-
logcondens-1.3.4/logcondens/R/activeSetLogCon.R | 2
logcondens-1.3.4/logcondens/R/etaphi.R | 2
logcondens-1.3.4/logcondens/R/evaluateLogConDens.R | 10 +-
logcondens-1.3.4/logcondens/R/icmaLogCon.R | 7 +
logcondens-1.3.4/logcondens/R/intECDF.r | 2
logcondens-1.3.4/logcondens/R/intF.r | 11 +-
logcondens-1.3.4/logcondens/R/isoMean.R | 2
logcondens-1.3.4/logcondens/R/phieta.R | 2
logcondens-1.3.4/logcondens/R/qloglin.R | 6 -
logcondens-1.3.4/logcondens/R/quadDeriv.R | 2
logcondens-1.3.4/logcondens/R/quantilesLogConDens.R | 10 +-
logcondens-1.3.4/logcondens/R/robust.R | 4 -
logcondens-1.3.4/logcondens/inst/doc/KRcommands.tex |only
logcondens-1.3.4/logcondens/inst/doc/ims.bst |only
logcondens-1.3.4/logcondens/inst/doc/logcondens.pdf |only
logcondens-1.3.4/logcondens/inst/doc/logcondens.rnw |only
logcondens-1.3.4/logcondens/inst/doc/stat.bib |only
logcondens-1.3.4/logcondens/man/Jfunctions.Rd | 5 -
logcondens-1.3.4/logcondens/man/Lhat_eta.Rd | 2
logcondens-1.3.4/logcondens/man/Local_LL.Rd | 2
logcondens-1.3.4/logcondens/man/Local_LL_all.Rd | 2
logcondens-1.3.4/logcondens/man/MLE.Rd | 2
logcondens-1.3.4/logcondens/man/activeSetLogCon.Rd | 2
logcondens-1.3.4/logcondens/man/activeSetRoutines.Rd | 2
logcondens-1.3.4/logcondens/man/evaluateLogConDens.Rd | 2
logcondens-1.3.4/logcondens/man/icmaLogCon.Rd | 4 -
logcondens-1.3.4/logcondens/man/intECDF.Rd | 2
logcondens-1.3.4/logcondens/man/intF.Rd | 2
logcondens-1.3.4/logcondens/man/isoMean.Rd | 2
logcondens-1.3.4/logcondens/man/logcondens-package.Rd | 10 +-
logcondens-1.3.4/logcondens/man/qloglin.Rd | 2
logcondens-1.3.4/logcondens/man/quadDeriv.Rd | 2
logcondens-1.3.4/logcondens/man/quantilesLogConDens.Rd | 2
logcondens-1.3.4/logcondens/man/reparametrizations.Rd | 2
logcondens-1.3.4/logcondens/man/robust.Rd | 2
53 files changed, 111 insertions(+), 89 deletions(-)
Author: John Maindonald
Title: Data Sets and Functions, supplementary to DAAG
Description: various data sets used in additional exercises for the
book Maindonald, J.H. and Braun, W.J. (2nd edn 2007) "Data
Analysis and Graphics Using R", and for a 'Data Mining' course.
Note that a number of datasets that were in version 0.7-6 of
this package have been transferred to the DAAG package.
Diff between DAAGxtras versions 0.7-6 dated 2009-04-19 and 0.7-7 dated 2009-06-05
DAAGxtras-0.7-6/DAAGxtras/R/dataFile.R |only DAAGxtras-0.7-6/DAAGxtras/R/excessRisk.R |only DAAGxtras-0.7-6/DAAGxtras/data/DAAGxdb.RData |only DAAGxtras-0.7-6/DAAGxtras/data/bomregions.RData |only DAAGxtras-0.7-6/DAAGxtras/data/cps1.RData |only DAAGxtras-0.7-6/DAAGxtras/data/cps2.RData |only DAAGxtras-0.7-6/DAAGxtras/data/cps3.RData |only DAAGxtras-0.7-6/DAAGxtras/data/cricketer.RData |only DAAGxtras-0.7-6/DAAGxtras/data/edcCO2.RData |only DAAGxtras-0.7-6/DAAGxtras/data/edcT.RData |only DAAGxtras-0.7-6/DAAGxtras/data/gaba.RData |only DAAGxtras-0.7-6/DAAGxtras/data/grog.RData |only DAAGxtras-0.7-6/DAAGxtras/data/hotspots.RData |only DAAGxtras-0.7-6/DAAGxtras/data/hotspots2006.RData |only DAAGxtras-0.7-6/DAAGxtras/data/intersalt.RData |only DAAGxtras-0.7-6/DAAGxtras/data/nassCDS.RData |only DAAGxtras-0.7-6/DAAGxtras/data/nasshead.RData |only DAAGxtras-0.7-6/DAAGxtras/data/nihills.RData |only DAAGxtras-0.7-6/DAAGxtras/data/nswdemo.RData |only DAAGxtras-0.7-6/DAAGxtras/data/nswpsid1.RData |only DAAGxtras-0.7-6/DAAGxtras/data/progression.RData |only DAAGxtras-0.7-6/DAAGxtras/data/psid1.RData |only DAAGxtras-0.7-6/DAAGxtras/data/psid2.RData |only DAAGxtras-0.7-6/DAAGxtras/data/psid3.RData |only DAAGxtras-0.7-6/DAAGxtras/data/worldRecords.RData |only DAAGxtras-0.7-6/DAAGxtras/data/zzDAAGxdb.RData |only DAAGxtras-0.7-6/DAAGxtras/inst/doc/rockArt.aux |only DAAGxtras-0.7-6/DAAGxtras/inst/doc/rockArt.log |only DAAGxtras-0.7-6/DAAGxtras/man/DAAGxdb.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/bomregions.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/cps1.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/cps2.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/cps3.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/cricketer.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/datafile.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/edcCO2.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/edcT.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/excessRisk.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/gaba.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/grog.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/hotspots.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/hotspots2006.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/intersalt.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/nassCDS.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/nasshead.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/nihills.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/nswdemo.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/nswpsid1.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/progression.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/psid1.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/psid2.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/psid3.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/recordTimes.Rd |only DAAGxtras-0.7-6/DAAGxtras/man/zzDAAGxdb.Rd |only DAAGxtras-0.7-7/DAAGxtras/DESCRIPTION | 32 ++++++---------------- DAAGxtras-0.7-7/DAAGxtras/R/zzz.R |only 56 files changed, 9 insertions(+), 23 deletions(-)
Author: John Maindonald and W. John Braun
Title: Data Analysis And Graphics data and functions
Description: various data sets used in examples and exercises in the
book Maindonald, J.H. and Braun, W.J. (2003, 2007) "Data
Analysis and Graphics Using R".
Diff between DAAG versions 0.99-2 dated 2009-05-24 and 0.99-3 dated 2009-06-05
DAAG-0.99-2/DAAG/CVbinary.R |only DAAG-0.99-3/DAAG/DESCRIPTION | 10 +++++----- DAAG-0.99-3/DAAG/INDEX | 5 +++++ DAAG-0.99-3/DAAG/R/bestset.noise.R |only DAAG-0.99-3/DAAG/R/bestsetNoise.R | 6 +++--- DAAG-0.99-3/DAAG/R/bsnCV.R |only DAAG-0.99-3/DAAG/R/excessRisk.R |only DAAG-0.99-3/DAAG/R/sampdist.R |only DAAG-0.99-3/DAAG/data/nswpsid1.RData |only DAAG-0.99-3/DAAG/man/bestsetNoise.Rd | 27 ++++++++++++++++++++++++--- DAAG-0.99-3/DAAG/man/excessRisk.Rd |only DAAG-0.99-3/DAAG/man/nswpsid1.Rd |only DAAG-0.99-3/DAAG/man/sampdist.Rd |only 13 files changed, 37 insertions(+), 11 deletions(-)