Title: Extensible Time Series
Diff between xts versions 0.7-4 dated 2010-08-04 and 0.7-5 dated 2010-08-31
Description: Provide for uniform handling of R's different time-based
data classes by extending zoo, maximizing native format
information preservation and allowing for user level
customization and extension, while simplifying cross-class
interoperability.
Author: Jeffrey A. Ryan, Josh M. Ulrich
Maintainer: Jeffrey A. Ryan
xts-0.7-4/xts/inst/unitTests/report.html |only
xts-0.7-4/xts/inst/unitTests/report.txt |only
xts-0.7-4/xts/inst/unitTests/reportSummary.txt |only
xts-0.7-5/xts/DESCRIPTION | 10 -
xts-0.7-5/xts/NEWS | 26 +++++
xts-0.7-5/xts/R/endpoints.R | 2
xts-0.7-5/xts/R/index.R | 1
xts-0.7-5/xts/R/indexTZ.R | 17 ++-
xts-0.7-5/xts/R/origin.fix.R | 2
xts-0.7-5/xts/R/toperiod.R | 10 +
xts-0.7-5/xts/R/xts.R | 15 ++
xts-0.7-5/xts/R/xts.methods.R | 6 -
xts-0.7-5/xts/R/xtsible.R | 4
xts-0.7-5/xts/inst/doc/xts.pdf |binary
xts-0.7-5/xts/man/xts-package.Rd | 6 -
xts-0.7-5/xts/src/coredata.c | 3
xts-0.7-5/xts/src/subset.c | 129 ++++++++++++++++++++++++-
17 files changed, 203 insertions(+), 28 deletions(-)
Title: Chronological objects which can handle dates and times
Diff between chron versions 2.3-35 dated 2010-04-05 and 2.3-36 dated 2010-08-31
Description: Chronological objects which can handle dates and times
Author: S original by David James
Maintainer: Kurt Hornik
ChangeLog | 9 ++++++++-
DESCRIPTION | 8 ++++----
R/chron.R | 6 +++---
3 files changed, 15 insertions(+), 8 deletions(-)
Title: Bayesian Estimation of the GARCH(1,1) Model with Student-t
Innovations
Diff between bayesGARCH versions 1-00.05 dated 2009-11-25 and 1-00.06 dated 2010-08-31
Description: This package provides the bayesGARCH function which
performs the Bayesian estimation of the GARCH(1,1) model with
Student's t innovations.
Author: David Ardia
Maintainer: David Ardia
bayesGARCH-1-00.05/bayesGARCH/man/addPriorConditions.Rd |only
bayesGARCH-1-00.06/bayesGARCH/COPYRIGHTS | 2
bayesGARCH-1-00.06/bayesGARCH/DESCRIPTION | 8 -
bayesGARCH-1-00.06/bayesGARCH/NAMESPACE | 1
bayesGARCH-1-00.06/bayesGARCH/NEWS | 7 +
bayesGARCH-1-00.06/bayesGARCH/R/functions.R | 11 --
bayesGARCH-1-00.06/bayesGARCH/R/onload.R | 2
bayesGARCH-1-00.06/bayesGARCH/R/sampler.R | 20 ++-
bayesGARCH-1-00.06/bayesGARCH/THANKS | 3
bayesGARCH-1-00.06/bayesGARCH/demo/bayesGARCH.R | 14 --
bayesGARCH-1-00.06/bayesGARCH/inst/CITATION | 8 -
bayesGARCH-1-00.06/bayesGARCH/man/bayesGARCH.Rd | 85 ++++++++++++----
12 files changed, 103 insertions(+), 58 deletions(-)
Title: Normalised prediction distribution errors for nonlinear
mixed-effect models
Diff between npde versions 1.2 dated 2008-04-02 and 1.2.1 dated 2010-08-31
Description: Routines to compute normalised prediction distribution
errors, a metric designed to evaluate non-linear mixed effect
models such as those used in pharmacokinetics and
pharmacodynamics
Author: Emmanuelle Comets, Karl Brendel and France Mentré
Maintainer: Emmanuelle Comets
DESCRIPTION | 16 +++++++++++-----
man/calcnpde.Rd | 4 ++--
man/computenpde.Rd | 4 ++--
man/computepd.Rd | 4 ++--
man/graphnpde.Rd | 4 ++--
man/plotnpde.Rd | 7 +++----
man/plotpd.Rd | 10 ++++------
man/readobs.Rd | 4 ++--
8 files changed, 28 insertions(+), 25 deletions(-)
Title: Nearest Neighbor Autocovariates
Diff between nnc versions 1.13 dated 2010-08-30 and 1.14 dated 2010-08-31
Description: Computes nearest neighbor autocovariates
Author: A. I. McLeod and M. S. Islam
Maintainer:
DESCRIPTION | 8 +--
NEWS | 2
inst/doc/Rplots.pdf | 101 ++++++++++++++++++++++-------------------------
inst/doc/nncVignette.pdf |binary
man/nnc-package.Rd | 8 +--
man/nncTest.Rd | 7 +++
6 files changed, 64 insertions(+), 62 deletions(-)
Title: Pharmacometric tools for data preparation, modeling, simulation,
and reporting
Diff between MIfuns versions 4.0.17 dated 2010-08-31 and 4.0.18 dated 2010-08-31
Description: Pharmacometric tools for common data preparation tasks,
stratified bootstrap resampling of data sets, NONMEM control
stream creation/editing, NONMEM model execution, creation of
standard and user-defined diagnostic plots, execution and
summary of bootstrap and predictive check results,
implementation of simulations from posterior parameter
distributions, reporting of output tables and creation of a
detailed analysis log.
Author: Metrum Institute (http://metruminstitute.org): Bill Knebel,
Leonid Gibianski, Tim Bergsma
Maintainer: Tim Bergsma
DESCRIPTION | 8 ++++----
R/PLOTR.R | 41 ++++++++++++++++++++++++++---------------
man/MIfuns-package.Rd | 4 ++--
man/dataFormat.Rd | 2 --
man/dataSynthesis.Rd | 3 ---
5 files changed, 32 insertions(+), 26 deletions(-)
Title: Statistical Catch-at-Age Plotting Environment
Diff between scape versions 1.0-9 dated 2009-04-21 and 1.1-0 dated 2010-08-31
Description: Import and plot results from statistical catch-at-age
models, used in fisheries stock assessments.
Author: Arni Magnusson
Maintainer: Arni Magnusson
scape-1.0-9/scape/INDEX |only
scape-1.0-9/scape/inst/CHANGES |only
scape-1.0-9/scape/inst/doc/mymodel.txt |only
scape-1.1-0/scape/DESCRIPTION | 17 +++----
scape-1.1-0/scape/NEWS |only
scape-1.1-0/scape/R/importCol.R | 37 +++++++++------
scape-1.1-0/scape/R/plotB.R | 31 ++++---------
scape-1.1-0/scape/R/plotCA.R | 48 +++++++++-----------
scape-1.1-0/scape/R/plotCL.R | 48 +++++++++-----------
scape-1.1-0/scape/R/plotIndex.R | 66 ++++++++++++++--------------
scape-1.1-0/scape/R/plotLA.R | 49 +++++++++-----------
scape-1.1-0/scape/R/plotN.R | 44 ++++++++----------
scape-1.1-0/scape/R/plotSel.R | 38 +++++++---------
scape-1.1-0/scape/inst/doc/Rplots.pdf |only
scape-1.1-0/scape/inst/doc/dsc-vignette.Rnw |only
scape-1.1-0/scape/inst/doc/dsc-vignette.pdf |only
scape-1.1-0/scape/inst/doc/dsc.pdf |binary
scape-1.1-0/scape/inst/doc/gallery.Rnw |only
scape-1.1-0/scape/inst/doc/gallery.pdf |only
scape-1.1-0/scape/inst/doc/mymodel.Rnw |only
scape-1.1-0/scape/inst/doc/mymodel.pdf |only
scape-1.1-0/scape/man/importCol.Rd | 14 ++---
scape-1.1-0/scape/man/plotB.Rd | 25 ++++++----
scape-1.1-0/scape/man/plotCA.Rd | 31 +++++++------
scape-1.1-0/scape/man/plotCL.Rd | 33 ++++++++------
scape-1.1-0/scape/man/plotIndex.Rd | 39 +++++++++-------
scape-1.1-0/scape/man/plotLA.Rd | 38 +++++++++-------
scape-1.1-0/scape/man/plotN.Rd | 31 ++++++++-----
scape-1.1-0/scape/man/plotSel.Rd | 33 ++++++++------
scape-1.1-0/scape/man/scape-package.Rd | 8 +--
scape-1.1-0/scape/man/x.cod.Rd | 10 ++--
scape-1.1-0/scape/man/x.ling.Rd | 8 ++-
scape-1.1-0/scape/man/x.oreo.Rd | 9 ++-
scape-1.1-0/scape/man/x.sbw.Rd | 8 ++-
34 files changed, 349 insertions(+), 316 deletions(-)
Title: For mapping global data : rworldmap
Diff between rworldmap versions 0.107 dated 2010-02-03 and 0.110 dated 2010-08-31
Description: Enables mapping of country level and gridded user
datasets.
Author:
Maintainer: Andy South
DESCRIPTION | 18
R/getMap.r | 16
R/joinData2Map.R |only
R/mapBars.r |only
R/mapBubbles.r | 6
R/mapCountryData.R | 50
R/mapGriddedData.r | 78
R/mapPies.r |only
R/mapPolys.R |only
R/rwmGetColours.R | 3
R/setMapExtents.R | 6
R/zzz.r | 2
inst/doc/Rplots.pdf |234591 ---------------------------------------------
inst/doc/rworldmap.Rnw | 2
inst/doc/rworldmap.pdf |binary
inst/doc/rworldmapFAQ.pdf |binary
man/joinCountryData2Map.Rd | 10
man/joinData2Map.Rd |only
man/mapBars.Rd |only
man/mapCountryData.Rd | 28
man/mapPies.Rd |only
man/mapPolys.Rd |only
man/rworldmap-package.Rd | 23
man/wrld_coarse.Rd | 14
24 files changed, 619 insertions(+), 234228 deletions(-)
Title: Bayesian graphical models using MCMC
Diff between rjags versions 2.1.0-6 dated 2010-07-29 and 2.1.0-7 dated 2010-08-31
Description: Interface to the JAGS MCMC library
Author: Martyn Plummer
Maintainer: Martyn Plummer
DESCRIPTION | 8 ++++----
R/jags.R | 2 +-
2 files changed, 5 insertions(+), 5 deletions(-)
Title: Statistical inference for partially observed Markov processes
Diff between pomp versions 0.32-1 dated 2010-08-24 and 0.32-5 dated 2010-08-31
Description: Inference methods for partially-observed Markov processes
Author: Aaron A. King, Edward L. Ionides, Carles Breto, Steve Ellner,
Bruce Kendall, Helen Wearing, Matthew J. Ferrari, Michael
Lavine, Daniel C. Reuman
Maintainer: Aaron A. King
DESCRIPTION | 10 -
R/euler.R | 6
R/plugins.R | 14 +-
R/pomp-fun.R | 4
R/pomp.R | 8 -
R/probe.R | 11 -
R/trajectory-pomp.R | 31 ++--
data/dacca.rda |binary
data/euler.sir.rda |binary
data/gillespie.sir.rda |binary
data/ou2.rda |binary
data/ricker.rda |only
inst/ChangeLog | 64 +++++++++
inst/data-R/euler.sir.R | 8 -
inst/data-R/gillespie.sir.R | 2
inst/data-R/ou2.R | 8 -
inst/data-R/ricker.R |only
inst/doc/advanced_topics_in_pomp.Rnw | 18 +-
inst/doc/advanced_topics_in_pomp.pdf |binary
inst/doc/intro_to_pomp.Rnw | 11 -
inst/doc/intro_to_pomp.pdf |binary
inst/doc/pomp.bib | 21 ++-
inst/examples/sir.R | 8 -
inst/examples/sir.c | 226 ++++-------------------------------
man/plugins.Rd | 4
man/ricker.Rd |only
src/R_init_pomp.c |only
src/cholmodel.c | 6
src/ou2.c | 36 ++---
src/ricker.c |only
src/sir.c | 38 ++---
tests/ou2-probe-match.R | 11 +
tests/ou2-probe-match.Rout.save | 30 ++++
tests/ricker.R |only
tests/ricker.Rout.save |only
35 files changed, 261 insertions(+), 314 deletions(-)
Title: Visualization using Eulerian tours and Hamiltonian
decompositions
Diff between PairViz versions 1.0 dated 2008-10-28 and 1.1 dated 2010-08-31
Description: Eulerian tours and Hamiltonian decompositions of complete
graphs are used to ameliorate order effects in statistical
graphics.
Author: C.B. Hurley and R.W. Oldford
Maintainer: Catherine Hurley
PairViz-1.0/PairViz/man/pvpcp.Rd |only
PairViz-1.1/PairViz/DESCRIPTION | 15 -
PairViz-1.1/PairViz/NAMESPACE | 6
PairViz-1.1/PairViz/R/catpcp.R |only
PairViz-1.1/PairViz/R/desaturate_color.R |only
PairViz-1.1/PairViz/R/egraph.R | 89 +++++++-
PairViz-1.1/PairViz/R/eulerian.R | 21 +-
PairViz-1.1/PairViz/R/guidedpcp.R | 39 ++-
PairViz-1.1/PairViz/R/hamorder.R | 11 -
PairViz-1.1/PairViz/R/mcplot.R | 36 ++-
PairViz-1.1/PairViz/R/pathweights.R | 52 +++--
PairViz-1.1/PairViz/R/specialg.R |only
PairViz-1.1/PairViz/R/table_plot.R | 57 +++--
PairViz-1.1/PairViz/demo/00Index | 2
PairViz-1.1/PairViz/demo/cat_pcp.R | 104 ++--------
PairViz-1.1/PairViz/demo/demo_fns.R |only
PairViz-1.1/PairViz/demo/euler.R | 102 +++++++--
PairViz-1.1/PairViz/demo/mcplots.R | 35 ++-
PairViz-1.1/PairViz/demo/pcp.R | 280 ++++++++++++++++++---------
PairViz-1.1/PairViz/demo/rating.R |only
PairViz-1.1/PairViz/demo/stars.R | 62 ++++-
PairViz-1.1/PairViz/demo/stepwise.R | 163 +++++++++++----
PairViz-1.1/PairViz/man/desaturate_color.Rd |only
PairViz-1.1/PairViz/man/etour.Rd | 11 -
PairViz-1.1/PairViz/man/eulerian.Rd | 8
PairViz-1.1/PairViz/man/even_graph.Rd | 10
PairViz-1.1/PairViz/man/find_path.Rd | 9
PairViz-1.1/PairViz/man/guided_pcp.Rd | 18 +
PairViz-1.1/PairViz/man/hpaths.Rd | 3
PairViz-1.1/PairViz/man/mc_plot.Rd | 6
PairViz-1.1/PairViz/man/mk_complete_graph.Rd | 2
PairViz-1.1/PairViz/man/mk_even_graph.Rd | 12 -
PairViz-1.1/PairViz/man/order_best.Rd | 2
PairViz-1.1/PairViz/man/overlayci.Rd | 6
PairViz-1.1/PairViz/man/overview.Rd | 2
PairViz-1.1/PairViz/man/path_cor.Rd | 1
PairViz-1.1/PairViz/man/pathweights.Rd | 9
PairViz-1.1/PairViz/man/pcp.Rd |only
PairViz-1.1/PairViz/man/specialg.Rd |only
PairViz-1.1/PairViz/man/spreadout.Rd |only
PairViz-1.1/PairViz/man/tableplot.Rd | 11 -
41 files changed, 766 insertions(+), 418 deletions(-)
Title: Multiscale Analysis for Density Functions
Diff between modehunt versions 1.0.4 dated 2009-03-04 and 1.0.5 dated 2010-08-31
Description: Given independent and identically distributed observations
X(1), ..., X(n) from a density f, this package provides five
methods to perform a multiscale analysis about f as well as the
necessary critical values. The first method, introduced in
Duembgen and Walther (2008), provides simultaneous confidence
statements for the existence and location of local increases
(or decreases) of f, based on all intervals I(all) spanned by
any two observations X(j), X(k). The second method approximates
the latter approach by using only a subset of I(all) and is
therefore computationally much more efficient, but
asymptotically equivalent. Omitting the additive correction
term Gamma in either method offers another two approaches which
are more powerful on small scales and less powerful on large
scales, however, not asymptotically minimax optimal anymore.
Finally, the block procedure is a compromise between adding
Gamma or not, having intermediate power properties. The latter
is again asymptotically equivalent to the first and was
introduced in Rufibach and Walther (2010).
Author: Kaspar Rufibach
Maintainer: Kaspar Rufibach
modehunt-1.0.4/modehunt/CHANGES |only
modehunt-1.0.4/modehunt/R/blocks.R |only
modehunt-1.0.4/modehunt/R/criticalValuesAll.R |only
modehunt-1.0.4/modehunt/R/criticalValuesApprox.R |only
modehunt-1.0.4/modehunt/R/dlin.R |only
modehunt-1.0.4/modehunt/R/minimalIntervals.R |only
modehunt-1.0.4/modehunt/R/modeHunting.R |only
modehunt-1.0.4/modehunt/R/modeHuntingApprox.R |only
modehunt-1.0.4/modehunt/R/modeHuntingBlock.R |only
modehunt-1.0.4/modehunt/R/myRound.R |only
modehunt-1.0.4/modehunt/R/plin.R |only
modehunt-1.0.4/modehunt/R/preProcessX.R |only
modehunt-1.0.4/modehunt/R/qlin.R |only
modehunt-1.0.4/modehunt/R/rlin.R |only
modehunt-1.0.5/modehunt/DESCRIPTION | 52 ++++++++++++--------
modehunt-1.0.5/modehunt/NEWS |only
modehunt-1.0.5/modehunt/R/blocks.r |only
modehunt-1.0.5/modehunt/R/criticalValuesAll.r |only
modehunt-1.0.5/modehunt/R/criticalValuesApprox.r |only
modehunt-1.0.5/modehunt/R/dlin.r |only
modehunt-1.0.5/modehunt/R/minimalIntervals.r |only
modehunt-1.0.5/modehunt/R/modeHunting.r |only
modehunt-1.0.5/modehunt/R/modeHuntingApprox.r |only
modehunt-1.0.5/modehunt/R/modeHuntingBlock.r |only
modehunt-1.0.5/modehunt/R/myRound.r |only
modehunt-1.0.5/modehunt/R/plin.r |only
modehunt-1.0.5/modehunt/R/preProcessX.r |only
modehunt-1.0.5/modehunt/R/qlin.r |only
modehunt-1.0.5/modehunt/R/rlin.r |only
modehunt-1.0.5/modehunt/data/cvModeAll.rda |binary
modehunt-1.0.5/modehunt/data/cvModeApprox.rda |binary
modehunt-1.0.5/modehunt/data/cvModeBlock.rda |binary
modehunt-1.0.5/modehunt/man/blocks.Rd | 10 +--
modehunt-1.0.5/modehunt/man/criticalValuesAll.Rd | 6 +-
modehunt-1.0.5/modehunt/man/criticalValuesApprox.Rd | 8 +--
modehunt-1.0.5/modehunt/man/cvModeAll.Rd | 4 -
modehunt-1.0.5/modehunt/man/cvModeApprox.Rd | 4 -
modehunt-1.0.5/modehunt/man/cvModeBlock.Rd | 4 -
modehunt-1.0.5/modehunt/man/lin.Rd | 8 +--
modehunt-1.0.5/modehunt/man/minimalIntervals.Rd | 6 +-
modehunt-1.0.5/modehunt/man/modeHunting.Rd | 6 +-
modehunt-1.0.5/modehunt/man/modeHuntingApprox.Rd | 6 +-
modehunt-1.0.5/modehunt/man/modeHuntingBlock.Rd | 6 +-
modehunt-1.0.5/modehunt/man/modehunt-package.Rd | 31 ++++++++---
modehunt-1.0.5/modehunt/man/myRound.Rd | 2
modehunt-1.0.5/modehunt/man/preProcessX.Rd | 2
46 files changed, 89 insertions(+), 66 deletions(-)
Title: Least squares, logistic, and Cox-regression with ordered
predictors
Diff between OrdFacReg versions 1.0.1 dated 2009-09-28 and 1.0.2 dated 2010-08-31
Description: In biomedical studies, researchers are often interested in
assessing the association between one or more ordinal
explanatory variables and an outcome variable, at the same time
adjusting for covariates of any type. The outcome variable may
be continuous, binary, or represent censored survival times. In
the absence of a precise knowledge of the response function,
using monotonicity constraints on the ordinal variables
improves efficiency in estimating parameters, especially when
sample sizes are small. This package implements an active set
algorithm that efficiently computes such estimators.
Author: Kaspar Rufibach
Maintainer: Kaspar Rufibach
OrdFacReg-1.0.1/OrdFacReg/CHANGES |only
OrdFacReg-1.0.1/OrdFacReg/R/Abeta.R |only
OrdFacReg-1.0.1/OrdFacReg/R/LSEsubspace.R |only
OrdFacReg-1.0.1/OrdFacReg/R/constraintMats.R |only
OrdFacReg-1.0.1/OrdFacReg/R/coxDeriv.R |only
OrdFacReg-1.0.1/OrdFacReg/R/coxLoglik.R |only
OrdFacReg-1.0.1/OrdFacReg/R/coxSubspace.R |only
OrdFacReg-1.0.1/OrdFacReg/R/dummy.R |only
OrdFacReg-1.0.1/OrdFacReg/R/expandBeta.R |only
OrdFacReg-1.0.1/OrdFacReg/R/indexDummy.R |only
OrdFacReg-1.0.1/OrdFacReg/R/lmLSE.R |only
OrdFacReg-1.0.1/OrdFacReg/R/lmSS.R |only
OrdFacReg-1.0.1/OrdFacReg/R/logRegDeriv.R |only
OrdFacReg-1.0.1/OrdFacReg/R/logRegLoglik.R |only
OrdFacReg-1.0.1/OrdFacReg/R/logRegSubspace.R |only
OrdFacReg-1.0.1/OrdFacReg/R/maxStep.R |only
OrdFacReg-1.0.1/OrdFacReg/R/ordFacReg.R |only
OrdFacReg-1.0.1/OrdFacReg/R/ordFacRegCox.R |only
OrdFacReg-1.0.1/OrdFacReg/R/phi_jl.R |only
OrdFacReg-1.0.1/OrdFacReg/R/prepareData.R |only
OrdFacReg-1.0.1/OrdFacReg/R/setminus.R |only
OrdFacReg-1.0.1/OrdFacReg/R/shrinkBeta.R |only
OrdFacReg-1.0.2/OrdFacReg/DESCRIPTION | 8 ++++----
OrdFacReg-1.0.2/OrdFacReg/NEWS |only
OrdFacReg-1.0.2/OrdFacReg/R/Abeta.r |only
OrdFacReg-1.0.2/OrdFacReg/R/LSEsubspace.r |only
OrdFacReg-1.0.2/OrdFacReg/R/constraintMats.r |only
OrdFacReg-1.0.2/OrdFacReg/R/coxDeriv.r |only
OrdFacReg-1.0.2/OrdFacReg/R/coxLoglik.r |only
OrdFacReg-1.0.2/OrdFacReg/R/coxSubspace.r |only
OrdFacReg-1.0.2/OrdFacReg/R/dummy.r |only
OrdFacReg-1.0.2/OrdFacReg/R/expandBeta.r |only
OrdFacReg-1.0.2/OrdFacReg/R/indexDummy.r |only
OrdFacReg-1.0.2/OrdFacReg/R/lmLSE.r |only
OrdFacReg-1.0.2/OrdFacReg/R/lmSS.r |only
OrdFacReg-1.0.2/OrdFacReg/R/logRegDeriv.r |only
OrdFacReg-1.0.2/OrdFacReg/R/logRegLoglik.r |only
OrdFacReg-1.0.2/OrdFacReg/R/logRegSubspace.r |only
OrdFacReg-1.0.2/OrdFacReg/R/maxStep.r |only
OrdFacReg-1.0.2/OrdFacReg/R/ordFacReg.r |only
OrdFacReg-1.0.2/OrdFacReg/R/ordFacRegCox.r |only
OrdFacReg-1.0.2/OrdFacReg/R/phi_jl.r |only
OrdFacReg-1.0.2/OrdFacReg/R/prepareData.r |only
OrdFacReg-1.0.2/OrdFacReg/R/setminus.r |only
OrdFacReg-1.0.2/OrdFacReg/R/shrinkBeta.r |only
OrdFacReg-1.0.2/OrdFacReg/man/internal.Rd | 10 +++++-----
OrdFacReg-1.0.2/OrdFacReg/man/ordFacReg-package.Rd | 8 ++++----
OrdFacReg-1.0.2/OrdFacReg/man/ordFacReg.Rd | 10 +++++-----
OrdFacReg-1.0.2/OrdFacReg/man/ordFacRegCox.Rd | 8 ++++----
OrdFacReg-1.0.2/OrdFacReg/man/prepareData.Rd | 6 +++---
50 files changed, 25 insertions(+), 25 deletions(-)
Title: Pharmacometric tools for data preparation, modeling, simulation,
and reporting
Diff between MIfuns versions 4.0.16 dated 2010-08-28 and 4.0.17 dated 2010-08-31
Description: Pharmacometric tools for common data preparation tasks,
stratified bootstrap resampling of data sets, NONMEM control
stream creation/editing, NONMEM model execution, creation of
standard and user-defined diagnostic plots, execution and
summary of bootstrap and predictive check results,
implementation of simulations from posterior parameter
distributions, reporting of output tables and creation of a
detailed analysis log.
Author: Metrum Institute (http://metruminstitute.org): Bill Knebel,
Leonid Gibianski, Tim Bergsma
Maintainer: Tim Bergsma
DESCRIPTION | 12
NAMESPACE |only
R/NONR.R | 2
R/PLOTR.R | 2
R/covariatePlots.R | 2
R/diagnosticPlots.R | 1
R/lookup.R | 1
R/params.R | 1
R/plot.nm.R | 10
R/read.cwres.data.R | 6
R/runCommand.R | 2
R/runNonmem.R | 2
R/runlog.R | 1
R/simpar.R | 1
R/xyplot.ext.R | 2
R/zzz.R | 28
inst/sample/nonmem/1005.boot/CombRunLog.csv | 1200 -
inst/sample/nonmem/1005.boot/log.csv |17400 ++++++++++++++--------------
inst/sample/nonmem/1005/1005.ctl | 2
inst/sample/nonmem/1005/1005.lst | 67
inst/sample/nonmem/1005/diagnostics.pdf | 242
inst/sample/nonmem/1105/1105.ctl | 9
inst/sample/nonmem/1105/1105.lst | 31
inst/sample/nonmem/ctl/1005.ctl | 2
inst/sample/nonmem/ctl/1105.ctl | 19
inst/sample/script/assemble.pdf |binary
inst/sample/script/assemble.tex | 3
inst/sample/script/model-bivariate.pdf | 4
inst/sample/script/model-covplot.pdf | 4
inst/sample/script/model-diamondBack.pdf | 4
inst/sample/script/model-stripplot.pdf | 4
inst/sample/script/model.R | 23
inst/sample/script/model.Rnw | 23
inst/sample/script/model.pdf |binary
inst/sample/script/model.tex | 184
inst/test/nm6/out/1/1.lst | 10
inst/test/nm6/out/1/1.tab | 2
inst/test/nm6/out/1/TestPlots.pdf | 4
inst/test/nm6/out/1/cwtab1 | 2
inst/test/nm6/out/1/diagnostics.pdf | 164
inst/test/nm6/out/1001.boot/1001.lst | 8
inst/test/nm6/out/1001/1001.lst | 6
inst/test/nm6/out/1001/TestPlots.pdf | 4
inst/test/nm6/out/1001/diagnostics.pdf | 164
inst/test/nm6/out/1002.boot/1002.lst | 12
inst/test/nm6/out/1002/1002.lst | 12
inst/test/nm6/out/1002/TestPlots.pdf | 4
inst/test/nm6/out/1002/diagnostics.pdf | 164
inst/test/nm6/out/1003.boot/1003.lst | 6
inst/test/nm6/out/1003/1003.lst | 6
inst/test/nm6/out/1003/TestPlots.pdf | 4
inst/test/nm6/out/1003/diagnostics.pdf | 164
inst/test/nm6/out/2/2.lst | 4
inst/test/nm6/out/2/2.tab | 2
inst/test/nm6/out/2/TestPlots.pdf | 4
inst/test/nm6/out/2/cwtab1 | 2
inst/test/nm6/out/2/diagnostics.pdf | 254
inst/test/nm7/out/1/1.lst | 24
inst/test/nm7/out/1/diagnostics.pdf | 164
inst/test/nm7/out/1/nmprd4p.mod |binary
inst/test/nm7/out/1001.boot/1001.lst | 22
inst/test/nm7/out/1001.boot/nmprd4p.mod |binary
inst/test/nm7/out/1001/1001.lst | 22
inst/test/nm7/out/1001/diagnostics.pdf | 164
inst/test/nm7/out/1001/nmprd4p.mod |binary
inst/test/nm7/out/1002.boot/1002.lst | 22
inst/test/nm7/out/1002.boot/nmprd4p.mod |binary
inst/test/nm7/out/1002/1002.lst | 24
inst/test/nm7/out/1002/diagnostics.pdf | 164
inst/test/nm7/out/1002/nmprd4p.mod |binary
inst/test/nm7/out/1003.boot/1003.lst | 20
inst/test/nm7/out/1003.boot/nmprd4p.mod |binary
inst/test/nm7/out/1003/1003.lst | 24
inst/test/nm7/out/1003/diagnostics.pdf | 164
inst/test/nm7/out/1003/nmprd4p.mod |binary
inst/test/nm7/out/1003/profile.pdf | 4
inst/test/nm7/out/2/2.lst | 20
inst/test/nm7/out/2/diagnostics.pdf | 256
inst/test/nm7/out/2/nmprd4p.mod |binary
inst/test/nm7/out/bootlog.csv | 6
inst/test/nm7/out/runlog.csv | 6
man/MIfuns-package.Rd | 4
man/NONR.Rd | 6
man/PLOTR.Rd | 3
man/accept.Rd | 2
man/acceptance.Rd | 2
man/diagnosticPlots.Rd | 2
man/lookup.Rd | 2
man/panel.densitystrip.Rd | 5
man/panel.hist.Rd | 2
man/panel.stratify.Rd | 2
man/params.Rd | 2
man/partab.Rd | 2
man/plot.nm.Rd | 3
man/rlog.Rd | 3
man/snap.Rd | 1
96 files changed, 10457 insertions(+), 10986 deletions(-)
Title: genome-wide SNP association analysis
Diff between GenABEL versions 1.6-2 dated 2010-08-08 and 1.6-4 dated 2010-08-31
Description: a package for genome-wide association analysis between
quantitative or binary traits and single-nucleiotide
polymorphisms (SNPs).
Author: Yurii Aulchenko, Maksim Struchalin
Maintainer: Yurii Aulchenko
GenABEL-1.6-2/GenABEL/R/ss_slot_wrappers.R |only
GenABEL-1.6-2/GenABEL/man/phdata.Rd |only
GenABEL-1.6-4/GenABEL/CHANGES.LOG | 19
GenABEL-1.6-4/GenABEL/DESCRIPTION | 8
GenABEL-1.6-4/GenABEL/NAMESPACE | 38
GenABEL-1.6-4/GenABEL/R/GenABEL-package.R | 3
GenABEL-1.6-4/GenABEL/R/add.plot.R | 31
GenABEL-1.6-4/GenABEL/R/ccfast.R | 70 +
GenABEL-1.6-4/GenABEL/R/check.marker.R | 47 +
GenABEL-1.6-4/GenABEL/R/descriptives.scan.R | 46 -
GenABEL-1.6-4/GenABEL/R/descriptives.trait.R | 8
GenABEL-1.6-4/GenABEL/R/egscore.R | 76 +
GenABEL-1.6-4/GenABEL/R/emp.ccfast.R | 2
GenABEL-1.6-4/GenABEL/R/emp.grammar.R | 2
GenABEL-1.6-4/GenABEL/R/emp.mmscore.R | 2
GenABEL-1.6-4/GenABEL/R/emp.qtscore.R | 2
GenABEL-1.6-4/GenABEL/R/export.merlin.R | 40 -
GenABEL-1.6-4/GenABEL/R/export.plink.R |only
GenABEL-1.6-4/GenABEL/R/formetascore.R | 71 +
GenABEL-1.6-4/GenABEL/R/grammar.R | 9
GenABEL-1.6-4/GenABEL/R/ibs.R | 4
GenABEL-1.6-4/GenABEL/R/mlreg.R | 60 +
GenABEL-1.6-4/GenABEL/R/mmscore.R | 65 +
GenABEL-1.6-4/GenABEL/R/plot.scan.gwaa.R | 44 -
GenABEL-1.6-4/GenABEL/R/polygenic.R | 8
GenABEL-1.6-4/GenABEL/R/qtscore.R | 153 ++-
GenABEL-1.6-4/GenABEL/R/scan.haplo.R | 22
GenABEL-1.6-4/GenABEL/R/snp.subset.R | 14
GenABEL-1.6-4/GenABEL/R/ss.R | 936 ++++++++++++++++++------
GenABEL-1.6-4/GenABEL/R/summary.gwaa.data.R | 11
GenABEL-1.6-4/GenABEL/R/summary.scan.gwaa.R |only
GenABEL-1.6-4/GenABEL/R/summary.snp.data.R | 9
GenABEL-1.6-4/GenABEL/R/zzz.R | 2
GenABEL-1.6-4/GenABEL/TODO | 2
GenABEL-1.6-4/GenABEL/data/ge03d2.clean.RData |binary
GenABEL-1.6-4/GenABEL/data/ge03d2ex.RData |binary
GenABEL-1.6-4/GenABEL/data/ge03d2ex.clean.RData |binary
GenABEL-1.6-4/GenABEL/demo/ge03d2.R | 2
GenABEL-1.6-4/GenABEL/demo/srdta.R | 2
GenABEL-1.6-4/GenABEL/demo/srdtawin.R | 2
GenABEL-1.6-4/GenABEL/man/GenABEL-package.Rd | 3
GenABEL-1.6-4/GenABEL/man/check.marker.Rd | 4
GenABEL-1.6-4/GenABEL/man/descriptives.scan.Rd | 3
GenABEL-1.6-4/GenABEL/man/egscore.old.Rd | 10
GenABEL-1.6-4/GenABEL/man/emp.ccfast.Rd | 8
GenABEL-1.6-4/GenABEL/man/emp.qtscore.Rd | 2
GenABEL-1.6-4/GenABEL/man/estlambda.Rd | 2
GenABEL-1.6-4/GenABEL/man/export.merlin.Rd | 9
GenABEL-1.6-4/GenABEL/man/export.plink.Rd |only
GenABEL-1.6-4/GenABEL/man/gwaa.data-class.Rd | 14
GenABEL-1.6-4/GenABEL/man/ibs.Rd | 3
GenABEL-1.6-4/GenABEL/man/plot.scan.gwaa.Rd | 4
GenABEL-1.6-4/GenABEL/man/qtscore.Rd | 4
GenABEL-1.6-4/GenABEL/man/qvaluebh95.Rd | 4
GenABEL-1.6-4/GenABEL/man/scan.glm.Rd | 12
GenABEL-1.6-4/GenABEL/man/scan.gwaa-class.Rd | 50 +
GenABEL-1.6-4/GenABEL/man/snp.data-class.Rd | 83 +-
GenABEL-1.6-4/GenABEL/man/summary.scan.gwaa.Rd |only
GenABEL-1.6-4/GenABEL/man/summary.snp.data.Rd | 8
59 files changed, 1472 insertions(+), 561 deletions(-)
Title: TK Rplot
Diff between tkrplot versions 0.0-18 dated 2008-04-01 and 0.0-19 dated 2010-08-31
Description: simple mechanism for placing R graphics in a Tk widget
Author: Luke Tierney
Maintainer: Luke Tierney
DESCRIPTION | 6 ++++--
src/Makevars.win | 2 +-
2 files changed, 5 insertions(+), 3 deletions(-)
Title: Testthat code. Tools to make testing fun :)
Diff between testthat versions 0.2 dated 2010-07-25 and 0.3 dated 2010-08-31
Description: A testing package specifically tailored for R that's fun,
flexible and easy to set up.
Author: Hadley Wickham
Maintainer: Hadley Wickham
testthat-0.2/testthat/ideas.r |only
testthat-0.2/testthat/load.r |only
testthat-0.2/testthat/man/create_traceback.Rd |only
testthat-0.2/testthat/man/try_capture_stack.Rd |only
testthat-0.2/testthat/tests/test-basics.r |only
testthat-0.2/testthat/tests/test-failure.r |only
testthat-0.2/testthat/tests/test-reporter.r |only
testthat-0.2/testthat/tests/test-throws-error.r |only
testthat-0.2/testthat/tests/test-watcher.r |only
testthat-0.3/testthat/DESCRIPTION | 13 -
testthat-0.3/testthat/NAMESPACE | 25 +-
testthat-0.3/testthat/NEWS | 31 +++
testthat-0.3/testthat/R/aaa-classes.r | 2
testthat-0.3/testthat/R/auto-test.r | 6
testthat-0.3/testthat/R/colour-text.r | 10 -
testthat-0.3/testthat/R/expect-that.r | 16 +
testthat-0.3/testthat/R/expectation.r | 2
testthat-0.3/testthat/R/expectations.r | 209 ++++++++++++++++++++----
testthat-0.3/testthat/R/library.r | 4
testthat-0.3/testthat/R/reporter-minimal.r | 1
testthat-0.3/testthat/R/reporter-stop.r | 34 +++
testthat-0.3/testthat/R/reporter-summary.r | 21 +-
testthat-0.3/testthat/R/reporter-zzz.r | 8
testthat-0.3/testthat/R/reporter.r | 11 -
testthat-0.3/testthat/R/test-files.r | 29 ++-
testthat-0.3/testthat/R/test-package.r |only
testthat-0.3/testthat/R/test-that.r | 61 +------
testthat-0.3/testthat/R/utils.r |only
testthat-0.3/testthat/R/watcher.r | 2
testthat-0.3/testthat/README.md |only
testthat-0.3/testthat/TODO | 5
testthat-0.3/testthat/inst |only
testthat-0.3/testthat/man/equals.Rd | 10 -
testthat-0.3/testthat/man/expect_that.Rd | 7
testthat-0.3/testthat/man/gives_warning.Rd |only
testthat-0.3/testthat/man/is_a.Rd | 4
testthat-0.3/testthat/man/is_equivalent_to.Rd | 12 +
testthat-0.3/testthat/man/is_false.Rd | 4
testthat-0.3/testthat/man/is_identical_to.Rd | 10 -
testthat-0.3/testthat/man/is_true.Rd | 4
testthat-0.3/testthat/man/matches.Rd | 13 +
testthat-0.3/testthat/man/prints_text.Rd | 6
testthat-0.3/testthat/man/shows_message.Rd |only
testthat-0.3/testthat/man/source_dir.Rd | 3
testthat-0.3/testthat/man/test_dir.Rd | 3
testthat-0.3/testthat/man/test_package.Rd |only
testthat-0.3/testthat/man/test_that.Rd | 4
testthat-0.3/testthat/man/throws_error.Rd | 7
testthat-0.3/testthat/tests/test-all.R |only
49 files changed, 409 insertions(+), 168 deletions(-)
Title: Smooth Estimation of GPD Shape Parameter
Diff between smoothtail versions 1.1.4 dated 2009-10-15 and 2.0.0 dated 2010-08-31
Description: Given independent and identically distributed observations
X(1), ..., X(n) from a Generalized Pareto distribution with
shape parameter gamma in [-1,0], this package offers several
estimates to compute estimates of gamma. The estimates are
based on the principle of replacing the order statistics by
quantiles of a distribution function based on a log--concave
density function. This procedure is justified by the fact that
the GPD density is log--concave for gamma in [-1,0].
Author: Kaspar Rufibach
Maintainer: Kaspar Rufibach
smoothtail-1.1.4/smoothtail/R/dgpd.R |only
smoothtail-1.1.4/smoothtail/R/falk.R |only
smoothtail-1.1.4/smoothtail/R/falkMVUE.R |only
smoothtail-1.1.4/smoothtail/R/pgpd.R |only
smoothtail-1.1.4/smoothtail/R/pickands.R |only
smoothtail-1.1.4/smoothtail/R/qgpd.R |only
smoothtail-1.1.4/smoothtail/R/rgpd.R |only
smoothtail-2.0.0/smoothtail/CHANGES | 4 +
smoothtail-2.0.0/smoothtail/DESCRIPTION | 10 +--
smoothtail-2.0.0/smoothtail/R/dgpd.r |only
smoothtail-2.0.0/smoothtail/R/falk.r |only
smoothtail-2.0.0/smoothtail/R/falkMVUE.r |only
smoothtail-2.0.0/smoothtail/R/generalizedPick.r | 56 ++++++++++--------
smoothtail-2.0.0/smoothtail/R/lambdaGenPick.r | 22 +++----
smoothtail-2.0.0/smoothtail/R/pgpd.r |only
smoothtail-2.0.0/smoothtail/R/pickands.r |only
smoothtail-2.0.0/smoothtail/R/qgpd.r |only
smoothtail-2.0.0/smoothtail/R/rgpd.r |only
smoothtail-2.0.0/smoothtail/man/falk.Rd | 15 +++-
smoothtail-2.0.0/smoothtail/man/falkMVUE.Rd | 15 +++-
smoothtail-2.0.0/smoothtail/man/generalizedPick.Rd | 15 +++-
smoothtail-2.0.0/smoothtail/man/pickands.Rd | 14 +++-
smoothtail-2.0.0/smoothtail/man/smoothtail-package.Rd | 44 +++++++-------
23 files changed, 118 insertions(+), 77 deletions(-)
Title: Modeling evolution in paleontological time-series
Diff between paleoTS versions 0.3-2 dated 2010-05-08 and 0.3-3 dated 2010-08-31
Description: This package facilitates analysis of paleontological
sequences of trait values from an evolving lineage. Functions
are provided to fit, using maximum likelihood, evolutionary
models including unbiased random walks, directional evolution,
stasis, and Ornstein-Uhlenbeck models. Newly added since
version (0.3-1) are functions to analyze punctuations and
models in which evolutionary dynamics change over the course of
a time-series of trait values.
Author: Gene Hunt
Maintainer: Gene Hunt
DESCRIPTION | 10 +++++-----
R/plot.paleoTS.R | 2 +-
man/stickleback.Rd | 8 +++++---
3 files changed, 11 insertions(+), 9 deletions(-)
Title: Robust Loss Development Using MCMC
Diff between lossDev versions 0.9.3 dated 2010-07-06 and 0.9.4 dated 2010-08-31
Description: Loss Development for Insurance Triangles
Author: Christopher W. Laws, Frank A. Schmid
Maintainer: Christopher W. Laws
DESCRIPTION | 6
R/AnnualAggLossDevModelInput.R | 1
R/AnnualAggLossDevModelOutput.R | 183
R/AnnualAggLossDevModelOutputWithZeros.R | 33
R/BreakAnnualAggLossDevModelInput.R | 2
R/BreakAnnualAggLossDevModelOutput.R | 28
R/LossDevModelInput.R | 3
R/LossDevModelOutput.R | 1
R/StandardAnnualAggLossDevModelInput.R | 2
R/StandardAnnualAggLossDevModelOutput.R | 18
inst/doc/Rplots.pdf |429380 +++++-----
inst/doc/charts/lossDev-breakAutoregressiveParameter.eps |18466
inst/doc/charts/lossDev-breakAutoregressiveParameter.pdf |18894
inst/doc/charts/lossDev-breakCalendarYearEffect.eps | 42
inst/doc/charts/lossDev-breakCalendarYearEffect.pdf | 78
inst/doc/charts/lossDev-breakCalendarYearEffectErrors.eps | 90
inst/doc/charts/lossDev-breakCalendarYearEffectErrors.pdf | 124
inst/doc/charts/lossDev-breakCalendarYearEffectErrorsAR1WithAR1.eps | 88
inst/doc/charts/lossDev-breakCalendarYearEffectErrorsAR1WithAR1.pdf | 135
inst/doc/charts/lossDev-breakConsumptionPath.eps | 162
inst/doc/charts/lossDev-breakConsumptionPath.pdf | 152
inst/doc/charts/lossDev-breakFirstYearInNewRegime.eps | 6
inst/doc/charts/lossDev-breakFirstYearInNewRegime.pdf | 49
inst/doc/charts/lossDev-breakNumberOfKnots.eps | 24
inst/doc/charts/lossDev-breakNumberOfKnots.pdf | 70
inst/doc/charts/lossDev-breakPredictedInc.eps | 1206
inst/doc/charts/lossDev-breakPredictedInc.pdf | 1244
inst/doc/charts/lossDev-breakPredictedIncWithZeros.eps | 1208
inst/doc/charts/lossDev-breakPredictedIncWithZeros.pdf | 1257
inst/doc/charts/lossDev-breakRateOfDecay.eps | 538
inst/doc/charts/lossDev-breakRateOfDecay.pdf | 536
inst/doc/charts/lossDev-breakResiDevYearStandardized.eps | 442
inst/doc/charts/lossDev-breakResiDevYearStandardized.pdf | 436
inst/doc/charts/lossDev-breakResiDevYearUnStandardized.eps | 432
inst/doc/charts/lossDev-breakResiDevYearUnStandardized.pdf | 432
inst/doc/charts/lossDev-breakSkew.eps |18515
inst/doc/charts/lossDev-breakSkew.pdf |18907
inst/doc/charts/lossDev-breakfinalCumulativeDiff.eps | 492
inst/doc/charts/lossDev-breakfinalCumulativeDiff.pdf | 840
inst/doc/charts/lossDev-plotBreakConsumptionPathTracePostBreak.eps |53414 -
inst/doc/charts/lossDev-plotBreakConsumptionPathTracePostBreak.pdf |54123 -
inst/doc/charts/lossDev-plotBreakConsumptionPathTracePreBreak.eps |53378 -
inst/doc/charts/lossDev-plotBreakConsumptionPathTracePreBreak.pdf |54146 -
inst/doc/charts/lossDev-plotStandardConsumptionPathTrace.eps |52695 -
inst/doc/charts/lossDev-plotStandardConsumptionPathTrace.pdf |54101 -
inst/doc/charts/lossDev-plotStandardexposureGrowthTrace.eps |52927 -
inst/doc/charts/lossDev-plotStandardexposureGrowthTrace.pdf |54120 -
inst/doc/charts/lossDev-standardCalendarYearEffect.eps | 98
inst/doc/charts/lossDev-standardCalendarYearEffect.pdf | 140
inst/doc/charts/lossDev-standardCalendarYearEffectErrors.eps | 76
inst/doc/charts/lossDev-standardCalendarYearEffectErrors.pdf | 108
inst/doc/charts/lossDev-standardConsumptionPath.eps | 84
inst/doc/charts/lossDev-standardConsumptionPath.pdf | 100
inst/doc/charts/lossDev-standardDegreesOfFreedom.eps |18519
inst/doc/charts/lossDev-standardDegreesOfFreedom.pdf |18900
inst/doc/charts/lossDev-standardExposureYearGrowth.eps | 58
inst/doc/charts/lossDev-standardExposureYearGrowth.pdf | 98
inst/doc/charts/lossDev-standardNumberOfKnots.eps | 49
inst/doc/charts/lossDev-standardNumberOfKnots.pdf | 82
inst/doc/charts/lossDev-standardPredictedCumul.eps | 338
inst/doc/charts/lossDev-standardPredictedCumul.pdf | 390
inst/doc/charts/lossDev-standardPredictedInc.eps | 468
inst/doc/charts/lossDev-standardPredictedInc.pdf | 500
inst/doc/charts/lossDev-standardQQ.eps | 340
inst/doc/charts/lossDev-standardQQ.pdf | 382
inst/doc/charts/lossDev-standardRateOfDecay.eps | 82
inst/doc/charts/lossDev-standardRateOfDecay.pdf | 96
inst/doc/charts/lossDev-standardResiByCalYear.eps | 190
inst/doc/charts/lossDev-standardResiByCalYear.pdf | 204
inst/doc/charts/lossDev-standardResiByDevYear.eps | 190
inst/doc/charts/lossDev-standardResiByDevYear.pdf | 204
inst/doc/charts/lossDev-standardResiByExpYear.eps | 190
inst/doc/charts/lossDev-standardResiByExpYear.pdf | 204
inst/doc/charts/lossDev-standardSTDvsDev.eps | 84
inst/doc/charts/lossDev-standardSTDvsDev.pdf | 116
inst/doc/charts/lossDev-standardSkew.eps |18526
inst/doc/charts/lossDev-standardSkew.pdf |18876
inst/doc/charts/lossDev-standardStochInflation.eps | 246
inst/doc/charts/lossDev-standardStochInflation.pdf | 294
inst/doc/charts/lossDev-standardStochInflationRhoParameter.eps |18463
inst/doc/charts/lossDev-standardStochInflationRhoParameter.pdf |18882
inst/doc/charts/lossDev-standardStochInflationStationaryMean.eps |18147
inst/doc/charts/lossDev-standardStochInflationStationaryMean.pdf |18502
inst/doc/charts/lossDev-standardfinalCumulativeDiff.eps | 280
inst/doc/charts/lossDev-standardfinalCumulativeDiff.pdf | 486
inst/doc/charts/lossDev-zeroPayments5050.eps |18418
inst/doc/charts/lossDev-zeroPayments5050.pdf |18520
inst/doc/charts/lossDev-zeroPaymentsCurve.eps | 418
inst/doc/charts/lossDev-zeroPaymentsCurve.pdf | 469
inst/doc/charts/lossDev-zeroPaymentsScale.eps |18338
inst/doc/charts/lossDev-zeroPaymentsScale.pdf |18521
inst/doc/lossDev.Rnw | 2
inst/doc/lossDev.pdf |binary
man/AnnualAggLossDevModelOutputWithZeros-class.Rd | 6
man/BreakAnnualAggLossDevModelInput-class.Rd | 4
man/BreakAnnualAggLossDevModelOutputWithZeros-class.Rd | 4
man/QQPlot,AnnualAggLossDevModelOutput-method.Rd | 4
man/QQPlot.Rd | 5
man/StandardAnnualAggLossDevModelInput-class.Rd | 4
man/StandardAnnualAggLossDevModelOutputWithZeros-class.Rd | 4
man/autoregressiveParameter,AnnualAggLossDevModelOutput-method.Rd | 8
man/autoregressiveParameter.Rd | 9
man/calendarYearEffect,AnnualAggLossDevModelOutput-method.Rd | 10
man/calendarYearEffect.Rd | 11
man/calendarYearEffectAutoregressiveParameter,AnnualAggLossDevModelOutput-method.Rd | 8
man/calendarYearEffectAutoregressiveParameter.Rd | 9
man/calendarYearEffectErrorTracePlot,AnnualAggLossDevModelOutput-method.Rd | 4
man/calendarYearEffectErrorTracePlot.Rd | 5
man/calendarYearEffectErrors,AnnualAggLossDevModelOutput-method.Rd | 10
man/calendarYearEffectErrors.Rd | 11
man/consumptionPath,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/consumptionPath,StandardAnnualAggLossDevModelOutput-method.Rd | 4
man/consumptionPath.Rd | 7
man/consumptionPathTracePlot,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/consumptionPathTracePlot,StandardAnnualAggLossDevModelOutput-method.Rd | 4
man/consumptionPathTracePlot.Rd | 5
man/degreesOfFreedom.Rd | 1
man/exposureGrowth,AnnualAggLossDevModelOutput-method.Rd | 4
man/exposureGrowth.Rd | 5
man/exposureGrowthAutoregressiveParameter.Rd | 1
man/exposureGrowthTracePlot,AnnualAggLossDevModelOutput-method.Rd | 4
man/exposureGrowthTracePlot.Rd | 5
man/finalCumulativeDiff,AnnualAggLossDevModelOutputWithZeros-method.Rd | 6
man/finalCumulativeDiff.Rd | 1
man/firstYearInNewRegime,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/firstYearInNewRegime.Rd | 5
man/firstYearInNewRegimeTracePlot,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/firstYearInNewRegimeTracePlot.Rd | 5
man/getJagsData.Rd | 1
man/getJagsInits.Rd | 1
man/getModelOutputNodes.Rd | 1
man/getTriDim.Rd | 1
man/gompertzParameters,AnnualAggLossDevModelOutputWithZeros-method.Rd | 1
man/gompertzParameters.Rd | 1
man/lossDevelopmentFactors,AnnualAggLossDevModelOutput-method.Rd | 4
man/lossDevelopmentFactors.Rd | 5
man/mcmcACF,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/mcmcACF,StandardAnnualAggLossDevModelOutput-method.Rd | 4
man/mcmcACF.Rd | 5
man/meanExposureGrowth.Rd | 1
man/numberOfKnots,BreakAnnualAggLossDevModelOutput-method.Rd | 6
man/numberOfKnots,StandardAnnualAggLossDevModelOutput-method.Rd | 6
man/numberOfKnots.Rd | 7
man/predictedPayments,AnnualAggLossDevModelOutputWithZeros-method.Rd | 4
man/predictedPayments.Rd | 1
man/probablityOfPayment.Rd | 1
man/rateOfDecay,BreakAnnualAggLossDevModelOutput-method.Rd | 6
man/rateOfDecay,StandardAnnualAggLossDevModelOutput-method.Rd | 6
man/rateOfDecay.Rd | 9
man/rateOfDecayTracePlot,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/rateOfDecayTracePlot,StandardAnnualAggLossDevModelOutput-method.Rd | 4
man/rateOfDecayTracePlot.Rd | 5
man/runLossDevModel.Rd | 1
man/scaleParameter.Rd | 1
man/skewnessParameter.Rd | 1
man/standardDeviationForScaleInnovation,AnnualAggLossDevModelOutput-method.Rd | 6
man/standardDeviationForScaleInnovation.Rd | 5
man/standardDeviationOfCalendarYearEffect,AnnualAggLossDevModelOutput-method.Rd | 8
man/standardDeviationOfCalendarYearEffect.Rd | 9
man/standardDeviationOfExposureGrowth,AnnualAggLossDevModelOutput-method.Rd | 6
man/standardDeviationOfExposureGrowth.Rd | 1
man/standardDeviationVsDevelopmentTime.Rd | 1
man/stochasticInflation,AnnualAggLossDevModelOutput-method.Rd | 6
man/stochasticInflation.Rd | 7
man/stochasticInflationRhoParameter,AnnualAggLossDevModelOutput-method.Rd | 6
man/stochasticInflationRhoParameter.Rd | 7
man/stochasticInflationStationaryMean,AnnualAggLossDevModelOutput-method.Rd | 6
man/stochasticInflationStationaryMean.Rd | 7
man/tailFactor,BreakAnnualAggLossDevModelOutput-method.Rd | 4
man/tailFactor,BreakAnnualAggLossDevModelOutputWithZeros-method.Rd | 10
man/tailFactor,StandardAnnualAggLossDevModelOutput-method.Rd | 4
man/tailFactor,StandardAnnualAggLossDevModelOutputWithZeros-method.Rd | 10
man/tailFactor.Rd | 5
man/triResi,AnnualAggLossDevModelOutput-method.Rd | 4
man/triResi.Rd | 5
src/Makevars.win | 98
src/distributions/DSpline.cpp | 684
src/distributions/DSpline.h | 446
src/samplers/ExpandableArray.cpp | 142
src/samplers/ExpandableArray.h | 94
src/samplers/Knots.cpp | 1280
src/samplers/Knots.h | 266
src/samplers/RJumpSpline.cpp | 1548
src/samplers/RJumpSpline.h | 378
src/samplers/RJumpSplineFactory.cpp | 272
src/samplers/RJumpSplineFactory.h | 130
src/samplers/lapack.h | 180
187 files changed, 589478 insertions(+), 589541 deletions(-)
Title: Functional Data Analysis
Diff between fda versions 2.2.2 dated 2010-06-22 and 2.2.3 dated 2010-08-31
Description: These functions were developed to support functional data
analysis as described in Ramsay, J. O. and Silverman, B. W.
(2005) Functional Data Analysis. New York: Springer. They were
ported from earlier versions in Matlab and S-PLUS. An
introduction appears in Ramsay, J. O., Hooker, Giles, and
Graves, Spencer (2009) Functional Data Analysis with R and
Matlab (Springer). The package includes data sets and script
files working many examples including all but one of the 76
figures in this latter book.
Author: J. O. Ramsay
Maintainer: J. O. Ramsay
DESCRIPTION | 8 +++++---
R/basisfd.R | 14 ++++++++------
R/fRegress.CV.R | 4 ++--
R/fRegress.numeric.R | 2 +-
R/fd.R | 14 ++++++++------
man/Fperm.fd.Rd | 4 ++--
6 files changed, 26 insertions(+), 20 deletions(-)
Title: Parsing and evaluation tools that provide more details than the
default.
Diff between evaluate versions 0.1 dated 2010-07-24 and 0.3 dated 2010-08-31
Description: Parsing and evaluation tools that make it easy to recreate
the command line behaviour of R.
Author: Hadley Wickham
Maintainer: Hadley Wickham
DESCRIPTION | 10 +++++----
NAMESPACE | 4 +++
NEWS |only
R/eval.r | 19 +++++++++++-------
R/graphics.r | 17 +++++-----------
R/output.r | 15 +++++++++++++-
R/parse.r | 10 ++++-----
R/replay.r | 10 ++++-----
R/src-region.r | 8 +++----
R/traceback.r |only
R/watcher.r | 12 ++++++-----
inst/doc |only
inst/tests/ggplot.r |only
inst/tests/test-evaluate.r | 47 +++++++++++----------------------------------
inst/tests/test-graphics.r |only
man/create_traceback.Rd |only
man/is.message.Rd |only
man/line_prompt.Rd | 3 +-
man/try_capture_stack.Rd |only
19 files changed, 77 insertions(+), 78 deletions(-)
Title: Sequential Parameter Optimization
Diff between SPOT versions 0.1.888 dated 2010-06-22 and 0.1.1016 dated 2010-08-31
Description: R-Package for Sequential Parameter Optimization Toolbox
Author: T. Bartz-Beielstein with contributions from: J. Ziegenhirt, W.
Konen, O. Flasch, P. Koch, M. Zaefferer
Maintainer: O. Flasch
SPOT-0.1.1016/SPOT/DESCRIPTION | 28 +-
SPOT-0.1.1016/SPOT/R/spot.R | 177 +++++++++--------
SPOT-0.1.1016/SPOT/R/spotAlgStartEs.R | 150 +++++++-------
SPOT-0.1.1016/SPOT/R/spotAlgStartSann.R | 25 --
SPOT-0.1.1016/SPOT/R/spotCreateDesignBasicDoe.R | 4
SPOT-0.1.1016/SPOT/R/spotCreateDesignDoeR3.R | 4
SPOT-0.1.1016/SPOT/R/spotCreateDesignFrF2.R | 4
SPOT-0.1.1016/SPOT/R/spotCreateDesignLhd.R | 4
SPOT-0.1.1016/SPOT/R/spotCreateDesignLhs.R | 4
SPOT-0.1.1016/SPOT/R/spotFuncStartBranin.R | 8
SPOT-0.1.1016/SPOT/R/spotGenerateSequentialDesign.R | 20 -
SPOT-0.1.1016/SPOT/R/spotGetOptions.R | 9
SPOT-0.1.1016/SPOT/R/spotGui.R |only
SPOT-0.1.1016/SPOT/R/spotHelpFunctions.R | 33 +--
SPOT-0.1.1016/SPOT/R/spotMeta.R | 65 +++++-
SPOT-0.1.1016/SPOT/R/spotPredictLm.R | 8
SPOT-0.1.1016/SPOT/R/spotPredictLmOptim.R | 16 -
SPOT-0.1.1016/SPOT/R/spotPredictMlegp.R | 4
SPOT-0.1.1016/SPOT/R/spotPrepareData.R | 12 -
SPOT-0.1.1016/SPOT/R/spotReportDefault.R | 2
SPOT-0.1.1016/SPOT/R/spotReportMetaDefault.R |only
SPOT-0.1.1016/SPOT/R/spotReportSens.R | 10
SPOT-0.1.1016/SPOT/R/spotSeqDesignIncreaseMultTwo.R | 3
SPOT-0.1.1016/SPOT/R/spotSeqDesignIncreasePlusOne.R | 3
SPOT-0.1.1016/SPOT/R/spotStatistics.R | 5
SPOT-0.1.1016/SPOT/Rplots.pdf | 4
SPOT-0.1.1016/SPOT/inst/GUI |only
SPOT-0.1.1016/SPOT/inst/doc/SPOT.pdf |binary
SPOT-0.1.1016/SPOT/inst/doc/SPOTmanual.pdf |binary
SPOT-0.1.1016/SPOT/man/SPOT-package.Rd | 4
SPOT-0.1.1016/SPOT/man/spot.Rd | 11 -
SPOT-0.1.1016/SPOT/man/spotAlgEs.Rd | 6
SPOT-0.1.1016/SPOT/man/spotAlgEsBanana.Rd | 5
SPOT-0.1.1016/SPOT/man/spotAlgEsBananaGradient.Rd | 6
SPOT-0.1.1016/SPOT/man/spotAlgEsDominantReco.Rd | 4
SPOT-0.1.1016/SPOT/man/spotAlgEsF.Rd | 7
SPOT-0.1.1016/SPOT/man/spotAlgEsGetSuccessRate.Rd | 7
SPOT-0.1.1016/SPOT/man/spotAlgEsHps.Rd | 6
SPOT-0.1.1016/SPOT/man/spotAlgEsIndividualInitial.Rd | 10
SPOT-0.1.1016/SPOT/man/spotAlgEsInitParentPop.Rd | 5
SPOT-0.1.1016/SPOT/man/spotAlgEsInterReco.Rd | 4
SPOT-0.1.1016/SPOT/man/spotAlgEsInterRecoBeSw02.Rd | 4
SPOT-0.1.1016/SPOT/man/spotAlgEsMarriage.Rd | 3
SPOT-0.1.1016/SPOT/man/spotAlgEsMarriageWithReplace.Rd | 3
SPOT-0.1.1016/SPOT/man/spotAlgEsObjMutation.Rd | 1
SPOT-0.1.1016/SPOT/man/spotAlgEsRastrigin.Rd | 5
SPOT-0.1.1016/SPOT/man/spotAlgEsSelection.Rd | 1
SPOT-0.1.1016/SPOT/man/spotAlgEsSphere.Rd | 6
SPOT-0.1.1016/SPOT/man/spotAlgEsSphere1.Rd | 6
SPOT-0.1.1016/SPOT/man/spotAlgEsStratMutation.Rd | 5
SPOT-0.1.1016/SPOT/man/spotAlgEsTermination.Rd | 9
SPOT-0.1.1016/SPOT/man/spotAlgEsWild.Rd | 5
SPOT-0.1.1016/SPOT/man/spotAlgStartEs.Rd | 6
SPOT-0.1.1016/SPOT/man/spotAlgStartSann.Rd | 4
SPOT-0.1.1016/SPOT/man/spotGenerateSequentialDesign.Rd | 10
SPOT-0.1.1016/SPOT/man/spotGetOptions.Rd | 4
SPOT-0.1.1016/SPOT/man/spotGetRepeats.Rd | 5
SPOT-0.1.1016/SPOT/man/spotGui.Rd |only
SPOT-0.1.1016/SPOT/man/spotInstAndLoadPackages.Rd | 9
SPOT-0.1.1016/SPOT/man/spotMetaFlattenFbsRow.Rd |only
SPOT-0.1.1016/SPOT/man/spotMetaGetAssignmentOp.Rd |only
SPOT-0.1.1016/SPOT/man/spotMetaGetMetaVarNames.Rd |only
SPOT-0.1.1016/SPOT/man/spotNoisyBraninFunction.Rd | 8
SPOT-0.1.1016/SPOT/man/spotReportMetaDefault.Rd |only
SPOT-0.1.1016/SPOT/man/spotReportSens.Rd | 4
SPOT-0.1.1016/SPOT/man/spotSafelyAddSource.Rd | 7
SPOT-0.1.1016/SPOT/man/spotSeqDesignIncreaseMultTwo.Rd | 3
SPOT-0.1.1016/SPOT/man/spotSeqDesignIncreasePlusOne.Rd | 3
SPOT-0.1.1016/SPOT/man/spotStepInitial.Rd | 3
SPOT-0.1.1016/SPOT/man/spotStepMetaOpt.Rd | 7
SPOT-0.1.1016/SPOT/man/spotStepRunAlg.Rd | 7
SPOT-0.1.1016/SPOT/man/spotWriteLines.Rd | 5
SPOT-0.1.888/SPOT/INDEX |only
SPOT-0.1.888/SPOT/MD5 |only
SPOT-0.1.888/SPOT/inst/demo16EsBranin/es1.aroi |only
SPOT-0.1.888/SPOT/inst/demo16EsBranin/es1.bst |only
SPOT-0.1.888/SPOT/inst/demo16EsBranin/es1.des |only
SPOT-0.1.888/SPOT/inst/demo16EsBranin/es1.res |only
SPOT-0.1.888/SPOT/inst/doc/SPOTmanual.tex |only
SPOT-0.1.888/SPOT/man/spotAlgEsNoisyBraninFunction.Rd |only
SPOT-0.1.888/SPOT/man/spotFuncStartBraninSann.Rd |only
SPOT-0.1.888/SPOT/man/spotMetaGetAssOp.Rd |only
82 files changed, 462 insertions(+), 348 deletions(-)