Title: Construct, Evaluate and Plot Value and Utility Functions
Diff between utility versions 1.2 dated 2014-01-16 and 1.3 dated 2014-10-14
Description: Construct and plot objective hierarchies and associated value and utility functions.
Evaluate the values and utilities and visualize the results as colored objective hierarchies or tables.
Visualize uncertainty by plotting median and quantile intervals within the nodes of objective hierarchies.
Get numerical results of the evaluations in standard R data types for further processing.
Author: Peter Reichert
Maintainer: Peter Reichert
utility-1.2/utility/R/utility.r |only
utility-1.3/utility/DESCRIPTION | 8
utility-1.3/utility/MD5 | 110 +++++-----
utility-1.3/utility/NAMESPACE | 7
utility-1.3/utility/R/utility.aggregate.r |only
utility-1.3/utility/R/utility.aggregation.r |only
utility-1.3/utility/R/utility.aux.r |only
utility-1.3/utility/R/utility.conversion.intpol.r |only
utility-1.3/utility/R/utility.conversion.parfun.r |only
utility-1.3/utility/R/utility.endnode.cond.r |only
utility-1.3/utility/R/utility.endnode.discrete.r |only
utility-1.3/utility/R/utility.endnode.firstavail.r |only
utility-1.3/utility/R/utility.endnode.intpol1d.r |only
utility-1.3/utility/R/utility.endnode.intpol2d.r |only
utility-1.3/utility/R/utility.endnode.parfun1d.r |only
utility-1.3/utility/R/utility.plot.r |only
utility-1.3/utility/man/evaluate.utility.aggregation.Rd | 1
utility-1.3/utility/man/evaluate.utility.conversion.intpol.Rd | 1
utility-1.3/utility/man/evaluate.utility.conversion.parfun.Rd | 1
utility-1.3/utility/man/evaluate.utility.endnode.cond.Rd | 9
utility-1.3/utility/man/evaluate.utility.endnode.discrete.Rd | 1
utility-1.3/utility/man/evaluate.utility.endnode.firstavail.Rd |only
utility-1.3/utility/man/evaluate.utility.endnode.intpol1d.Rd | 1
utility-1.3/utility/man/evaluate.utility.endnode.intpol2d.Rd | 1
utility-1.3/utility/man/evaluate.utility.endnode.parfun1d.Rd | 1
utility-1.3/utility/man/plot.utility.aggregation.Rd | 4
utility-1.3/utility/man/plot.utility.conversion.intpol.Rd | 4
utility-1.3/utility/man/plot.utility.conversion.parfun.Rd | 4
utility-1.3/utility/man/plot.utility.endnode.cond.Rd | 1
utility-1.3/utility/man/plot.utility.endnode.discrete.Rd | 1
utility-1.3/utility/man/plot.utility.endnode.firstavail.Rd |only
utility-1.3/utility/man/plot.utility.endnode.intpol1d.Rd | 1
utility-1.3/utility/man/plot.utility.endnode.intpol2d.Rd | 1
utility-1.3/utility/man/plot.utility.endnode.parfun1d.Rd | 1
utility-1.3/utility/man/print.utility.endnode.firstavail.Rd |only
utility-1.3/utility/man/summary.utility.endnode.firstavail.Rd |only
utility-1.3/utility/man/updatepar.utility.endnode.cond.Rd | 3
utility-1.3/utility/man/updatepar.utility.endnode.discrete.Rd | 1
utility-1.3/utility/man/updatepar.utility.endnode.firstavail.Rd |only
utility-1.3/utility/man/updatepar.utility.endnode.intpol1d.Rd | 1
utility-1.3/utility/man/updatepar.utility.endnode.intpol2d.Rd | 1
utility-1.3/utility/man/updatepar.utility.endnode.parfun1d.Rd | 1
utility-1.3/utility/man/utility-package.Rd | 35 ++-
utility-1.3/utility/man/utility.aggregate.add.Rd | 7
utility-1.3/utility/man/utility.aggregate.addmin.Rd |only
utility-1.3/utility/man/utility.aggregate.cobbdouglas.Rd | 7
utility-1.3/utility/man/utility.aggregate.geo.Rd | 7
utility-1.3/utility/man/utility.aggregate.geooff.Rd | 9
utility-1.3/utility/man/utility.aggregate.harmo.Rd | 7
utility-1.3/utility/man/utility.aggregate.harmooff.Rd | 9
utility-1.3/utility/man/utility.aggregate.max.Rd | 7
utility-1.3/utility/man/utility.aggregate.min.Rd | 7
utility-1.3/utility/man/utility.aggregate.mult.Rd | 7
utility-1.3/utility/man/utility.aggregate.revgeo.Rd | 7
utility-1.3/utility/man/utility.aggregate.revgeooff.Rd | 9
utility-1.3/utility/man/utility.aggregate.revharmo.Rd | 7
utility-1.3/utility/man/utility.aggregate.revharmooff.Rd | 9
utility-1.3/utility/man/utility.aggregation.create.Rd | 38 ++-
utility-1.3/utility/man/utility.conversion.intpol.create.Rd | 5
utility-1.3/utility/man/utility.conversion.parfun.create.Rd | 5
utility-1.3/utility/man/utility.endnode.cond.create.Rd | 5
utility-1.3/utility/man/utility.endnode.discrete.create.Rd | 5
utility-1.3/utility/man/utility.endnode.firstavail.create.Rd |only
utility-1.3/utility/man/utility.endnode.intpol1d.create.Rd | 5
utility-1.3/utility/man/utility.endnode.intpol2d.create.Rd | 5
utility-1.3/utility/man/utility.endnode.parfun1d.create.Rd | 5
66 files changed, 257 insertions(+), 115 deletions(-)
Title: Statistical Tools for Topological Data Analysis
Diff between TDA versions 1.1 dated 2014-08-20 and 1.2 dated 2014-10-14
Description: This package provides tools for the statistical analysis of persistent homology and for density clustering.
Author: Brittany T. Fasy, Jisu Kim, Fabrizio Lecci, Clement Maria
Maintainer: Fabrizio Lecci
TDA-1.1/TDA/R/bottleneckInterval.R |only
TDA-1.1/TDA/man/bottleneckInterval.Rd |only
TDA-1.1/TDA/src/kernelUtilities.h |only
TDA-1.2/TDA/DESCRIPTION | 16
TDA-1.2/TDA/MD5 | 260 +++++--
TDA-1.2/TDA/NAMESPACE | 4
TDA-1.2/TDA/NEWS | 7
TDA-1.2/TDA/R/bootstrapBand.R | 10
TDA-1.2/TDA/R/bootstrapDiagram.R |only
TDA-1.2/TDA/R/bottleneck.R | 45 -
TDA-1.2/TDA/R/clusterTree.R | 29
TDA-1.2/TDA/R/gridBy.R | 54 -
TDA-1.2/TDA/R/gridDiag.R | 170 ++--
TDA-1.2/TDA/R/hausdInterval.R | 10
TDA-1.2/TDA/R/kde.R | 6
TDA-1.2/TDA/R/kernelDist.R | 6
TDA-1.2/TDA/R/maxPersistence.R | 142 ++-
TDA-1.2/TDA/R/multipBootstrap.R | 10
TDA-1.2/TDA/R/plot.diagram.R | 6
TDA-1.2/TDA/R/plot.maxPersistence.R | 27
TDA-1.2/TDA/R/plotRule.R | 32
TDA-1.2/TDA/R/ripsArbitDiag.R | 12
TDA-1.2/TDA/R/ripsDiag.R | 24
TDA-1.2/TDA/R/ripsL2Diag.R | 68 +
TDA-1.2/TDA/R/sphereUnif.R |only
TDA-1.2/TDA/R/torusUnif.R | 1
TDA-1.2/TDA/R/wasserstein.R | 44 -
TDA-1.2/TDA/inst/doc/article.R | 27
TDA-1.2/TDA/inst/doc/article.Rnw | 191 +++--
TDA-1.2/TDA/inst/doc/article.pdf |binary
TDA-1.2/TDA/man/TDA-package.Rd | 14
TDA-1.2/TDA/man/bootstrapBand.Rd | 6
TDA-1.2/TDA/man/bootstrapDiagram.Rd |only
TDA-1.2/TDA/man/bottleneck.Rd | 8
TDA-1.2/TDA/man/circleUnif.Rd | 5
TDA-1.2/TDA/man/clusterTree.Rd | 8
TDA-1.2/TDA/man/dtm.Rd | 18
TDA-1.2/TDA/man/gridDiag.Rd | 208 ++---
TDA-1.2/TDA/man/hausdInterval.Rd | 8
TDA-1.2/TDA/man/kde.Rd | 5
TDA-1.2/TDA/man/kernelDist.Rd | 5
TDA-1.2/TDA/man/landscape.Rd | 2
TDA-1.2/TDA/man/maxPersistence.Rd | 231 +++---
TDA-1.2/TDA/man/multipBootstrap.Rd | 8
TDA-1.2/TDA/man/plot.clusterTree.Rd | 2
TDA-1.2/TDA/man/plot.diagram.Rd | 16
TDA-1.2/TDA/man/plot.maxPersistence.Rd | 128 +--
TDA-1.2/TDA/man/ripsDiag.Rd | 36
TDA-1.2/TDA/man/silhouette.Rd | 2
TDA-1.2/TDA/man/sphereUnif.Rd |only
TDA-1.2/TDA/man/summary.diagram.Rd | 6
TDA-1.2/TDA/man/torusUnif.Rd | 2
TDA-1.2/TDA/man/wasserstein.Rd | 12
TDA-1.2/TDA/src/Makevars | 4
TDA-1.2/TDA/src/boost/container |only
TDA-1.2/TDA/src/boost/intrusive |only
TDA-1.2/TDA/src/boost/intrusive_ptr.hpp |only
TDA-1.2/TDA/src/diag.cpp | 829 ++++++++---------------
TDA-1.2/TDA/src/gudhi |only
TDA-1.2/TDA/src/phat |only
TDA-1.2/TDA/src/tdautils |only
TDA-1.2/TDA/src/topology/persistence-diagram.h | 2
TDA-1.2/TDA/src/topology/persistence-diagram.hpp | 2
TDA-1.2/TDA/vignettes/article.Rnw | 191 +++--
TDA-1.2/TDA/vignettes/biblio.bib | 35
65 files changed, 1629 insertions(+), 1365 deletions(-)
Title: Interface between GRASS 6+ geographical information system and R
Diff between spgrass6 versions 0.8-3 dated 2013-09-01 and 0.8-6 dated 2014-10-14
Description: Interpreted interface between GRASS 6+ geographical
information system and R, based on starting R from within the GRASS
environment, or running free-standing R in a temporary GRASS location;
the package provides facilities for using all GRASS commands from the
R command line.
Author: Roger Bivand [cre, aut],
Rainer Krug [ctb],
Markus Neteler [ctb]
Maintainer: Roger Bivand
ChangeLog | 643 ++++++++++++++++++++++++++++++----------------
DESCRIPTION | 14 -
MD5 | 20 -
R/bin_link.R | 46 ++-
R/spgrass6.R | 125 --------
R/vect_link.R | 61 +---
R/xml1.R | 3
inst/ChangeLog | 643 ++++++++++++++++++++++++++++++----------------
inst/doc/spgrass6_0.3.pdf |binary
man/initGRASS.Rd | 2
man/spgrass6.Rd | 3
11 files changed, 917 insertions(+), 643 deletions(-)
Title: An easy to learn framework to conduct simulation studies which
disengages the researcher from administrative source code.
Diff between simTool versions 1.0 dated 2014-07-08 and 1.0.2 dated 2014-10-14
Description: The simTool package is designed for statistical simulations that
have two components. One component generates the data and the other one
analyzes the data. The main aims of the simTool package are the reduction
of the administrative source code (mainly loops and management code for the
results) and a simple applicability of the package that allows the user to
quickly learn how to work with the simTool package. Parallel computing is
also supported. Finally, convenient functions are provided to summarize the
simulation results.
Author: Marsel Scheer
Maintainer: Marsel Scheer
simTool-1.0.2/simTool/DESCRIPTION | 21 ++--
simTool-1.0.2/simTool/MD5 | 40 ++++----
simTool-1.0.2/simTool/NAMESPACE | 1
simTool-1.0.2/simTool/NEWS | 29 +++++-
simTool-1.0.2/simTool/R/as.data.frame.evalGrid.R | 38 ++++----
simTool-1.0.2/simTool/R/evalGrids.R | 61 +++++++------
simTool-1.0.2/simTool/R/meanAndNormCI.R |only
simTool-1.0.2/simTool/R/simTool-package.R | 4
simTool-1.0.2/simTool/README.md | 6 -
simTool-1.0.2/simTool/build/vignette.rds |binary
simTool-1.0.2/simTool/inst/doc/jss.pdf |only
simTool-1.0.2/simTool/inst/doc/simTool.R | 34 +++++--
simTool-1.0.2/simTool/inst/doc/simTool.Rmd |only
simTool-1.0.2/simTool/inst/doc/simTool.html |only
simTool-1.0.2/simTool/inst/doc/simToolPaper.Rmd |only
simTool-1.0.2/simTool/inst/doc/simToolPaper.html |only
simTool-1.0.2/simTool/man/as.data.frame.evalGrid.Rd | 19 ++--
simTool-1.0.2/simTool/man/evalGrids.Rd | 33 ++++---
simTool-1.0.2/simTool/man/meanAndNormCI.Rd |only
simTool-1.0.2/simTool/man/simTool-package.Rd | 4
simTool-1.0.2/simTool/tests/runit.as.data.frame.evalGrid.R | 29 +++---
simTool-1.0.2/simTool/tests/runit.evalGrids.R | 24 ++++-
simTool-1.0.2/simTool/vignettes/simTool.Rmd |only
simTool-1.0.2/simTool/vignettes/simToolPaper.Rmd |only
simTool-1.0/simTool/inst/doc/simTool.Rnw |only
simTool-1.0/simTool/inst/doc/simTool.pdf |only
simTool-1.0/simTool/vignettes/simTool.Rnw |only
27 files changed, 219 insertions(+), 124 deletions(-)
Title: Function Collection related to Hydrology, Zooming and Plotting
Diff between berryFunctions versions 1.5.2 dated 2014-09-15 and 1.6 dated 2014-10-14
More information about berryFunctions at CRAN
Description: collection of functions to: zoom in X11 graphics, use the unit hydrograph in a linear storage cascade, draw horizontal histograms and scatterplots colored by 3rd dimension, convert lists to data.frames, fit multiple functions (power, reciprocal, exponential, logarithmic, polynomial, rational) by regression. Development version: https://github.com/BerryBoessenkool
Author: Berry Boessenkool
Maintainer: Berry Boessenkool
berryFunctions-1.5.2/berryFunctions/R/changeAttribute.r |only
berryFunctions-1.5.2/berryFunctions/R/combineTextfiles.r |only
berryFunctions-1.5.2/berryFunctions/R/compFiles.R |only
berryFunctions-1.5.2/berryFunctions/R/extremeStatLmom.r |only
berryFunctions-1.5.2/berryFunctions/R/shapeZoom.R |only
berryFunctions-1.5.2/berryFunctions/R/showAttribute.r |only
berryFunctions-1.5.2/berryFunctions/man/changeAttribute.Rd |only
berryFunctions-1.5.2/berryFunctions/man/combineTextfiles.Rd |only
berryFunctions-1.5.2/berryFunctions/man/compFiles.Rd |only
berryFunctions-1.5.2/berryFunctions/man/extremeStatLmom.Rd |only
berryFunctions-1.5.2/berryFunctions/man/shapeZoom.Rd |only
berryFunctions-1.5.2/berryFunctions/man/showAttribute.Rd |only
berryFunctions-1.6/berryFunctions/ChangeLog | 90 +--
berryFunctions-1.6/berryFunctions/DESCRIPTION | 15
berryFunctions-1.6/berryFunctions/MD5 | 90 +--
berryFunctions-1.6/berryFunctions/NAMESPACE | 2
berryFunctions-1.6/berryFunctions/R/addAlpha.r | 13
berryFunctions-1.6/berryFunctions/R/betaPlot.R | 82 +--
berryFunctions-1.6/berryFunctions/R/colPoints.R | 132 ++--
berryFunctions-1.6/berryFunctions/R/colPointsHist.R | 2
berryFunctions-1.6/berryFunctions/R/colPointsLegend.R | 268 +++++-----
berryFunctions-1.6/berryFunctions/R/combineFiles.r |only
berryFunctions-1.6/berryFunctions/R/compareFiles.R |only
berryFunctions-1.6/berryFunctions/R/deprecatedFunctions.r |only
berryFunctions-1.6/berryFunctions/R/linReg.R | 8
berryFunctions-1.6/berryFunctions/R/logAxis.R | 38 +
berryFunctions-1.6/berryFunctions/R/movAv.R | 2
berryFunctions-1.6/berryFunctions/R/normPlot.R | 87 +--
berryFunctions-1.6/berryFunctions/R/pointZoom.R | 16
berryFunctions-1.6/berryFunctions/R/quantileBands.R |only
berryFunctions-1.6/berryFunctions/R/quantileMean.R |only
berryFunctions-1.6/berryFunctions/R/rainbow2.R |only
berryFunctions-1.6/berryFunctions/R/require2.r | 2
berryFunctions-1.6/berryFunctions/R/seqR.r | 53 -
berryFunctions-1.6/berryFunctions/R/tableColVal.r | 112 ++--
berryFunctions-1.6/berryFunctions/inst/extdata/Q_P.txt | 2
berryFunctions-1.6/berryFunctions/inst/extdata/gelman_equation_search.txt |only
berryFunctions-1.6/berryFunctions/inst/extdata/solitaire2.txt |only
berryFunctions-1.6/berryFunctions/man/addAlpha.Rd | 6
berryFunctions-1.6/berryFunctions/man/berryFunctions-package.Rd | 36 -
berryFunctions-1.6/berryFunctions/man/colPoints.Rd | 4
berryFunctions-1.6/berryFunctions/man/colPointsHist.Rd | 4
berryFunctions-1.6/berryFunctions/man/colPointsLegend.Rd | 9
berryFunctions-1.6/berryFunctions/man/combineFiles.Rd |only
berryFunctions-1.6/berryFunctions/man/compareFiles.Rd |only
berryFunctions-1.6/berryFunctions/man/createDoc.Rd | 3
berryFunctions-1.6/berryFunctions/man/deprecatedFunctions.Rd |only
berryFunctions-1.6/berryFunctions/man/exp4p.Rd | 3
berryFunctions-1.6/berryFunctions/man/linReg.Rd | 8
berryFunctions-1.6/berryFunctions/man/logAxis.Rd | 24
berryFunctions-1.6/berryFunctions/man/mReg.Rd | 19
berryFunctions-1.6/berryFunctions/man/movAv.Rd | 2
berryFunctions-1.6/berryFunctions/man/normPlot.Rd | 65 +-
berryFunctions-1.6/berryFunctions/man/pointZoom.Rd | 84 +--
berryFunctions-1.6/berryFunctions/man/quantileBands.Rd |only
berryFunctions-1.6/berryFunctions/man/quantileMean.Rd |only
berryFunctions-1.6/berryFunctions/man/rainbow2.Rd |only
berryFunctions-1.6/berryFunctions/man/seqR.Rd | 49 -
berryFunctions-1.6/berryFunctions/man/tableColVal.Rd | 4
59 files changed, 674 insertions(+), 660 deletions(-)
Permanent link
Title: Algorithmic Experimental Design
Diff between AlgDesign versions 1.1-7.2 dated 2014-02-12 and 1.1-7.3 dated 2014-10-14
Description: Algorithmic experimental designs. Calculates exact and
approximate theory experimental designs for D,A, and I
criteria. Very large designs may be created. Experimental
designs may be blocked or blocked designs created from a
candidate list, using several criteria. The blocking can be
done when whole and within plot factors interact.
Author: Bob Wheeler
Maintainer: Jerome Braun
DESCRIPTION | 13 +++++--------
MD5 | 4 +++-
NEWS |only
README |only
4 files changed, 8 insertions(+), 9 deletions(-)
Title: Geographically weighted regression
Diff between spgwr versions 0.6-24 dated 2013-09-16 and 0.6-25 dated 2014-10-14
Description: Functions for computing geographically weighted
regressions based on work by Chris
Brunsdon, Martin Charlton and Stewart Fotheringham,
http://gwr.nuim.ie/
Author: Roger Bivand [cre, aut],
Danlin Yu [aut],
Tomoki Nakaya [ctb],
Miquel-Angel Garcia-Lopez [ctb]
Maintainer: Roger Bivand
ChangeLog | 26 ++++++++++++++++++++++++++
DESCRIPTION | 19 +++++++++++--------
MD5 | 19 ++++++++++---------
R/gwr.R | 48 ++++++++++++++++++++++++------------------------
R/gwr.morantest.R | 6 +++++-
build |only
inst/ChangeLog | 26 ++++++++++++++++++++++++++
inst/doc/GWR.pdf |binary
man/LMZ.F3GWR.test.Rd | 5 +++++
man/georgia.Rd | 2 +-
man/gwr.Rd | 5 +++--
11 files changed, 111 insertions(+), 45 deletions(-)
Title: Supervised Component Generalized Linear Regression (SCGLR)
Diff between SCGLR versions 2.0 dated 2014-07-17 and 2.0.1 dated 2014-10-14
Description: SCGLR extends the Fisher Scoring Algorithm so as to combine PLS
regression with GLM estimation in the multivariate context.
Author: Mortier F., Trottier C., Cornu G., Bry X.
Maintainer: "G. Cornu"
DESCRIPTION | 6 ++--
MD5 | 54 ++++++++++++++++++------------------
NAMESPACE | 2 -
NEWS | 4 ++
R/ingUtils.r | 11 +++----
R/methods.r | 18 ++++++++----
R/multivariateGlm.fit.r | 11 -------
R/scglrCrossVal.r | 62 +++++++++++++++++++++---------------------
inst/doc/scglrVignettes.R | 10 ++----
inst/doc/scglrVignettes.pdf |binary
inst/doc/scglrVignettes.rnw | 54 ++++++++----------------------------
man/barplot.SCGLR.Rd | 2 -
man/critConvergence.Rd | 2 -
man/customize.Rd | 2 -
man/genus.Rd | 2 -
man/infoCriterion.Rd | 2 -
man/method.Rd | 2 -
man/multivariateFormula.Rd | 2 -
man/multivariateGlm.Rd | 2 -
man/multivariatePredictGlm.Rd | 2 -
man/pairs.SCGLR.Rd | 2 -
man/plot.SCGLR.Rd | 2 -
man/print.SCGLR.Rd | 2 -
man/scglr-package.Rd | 2 -
man/scglr.Rd | 2 -
man/scglrCrossVal.Rd | 2 -
man/summary.SCGLR.Rd | 2 -
vignettes/scglrVignettes.rnw | 54 ++++++++----------------------------
28 files changed, 128 insertions(+), 190 deletions(-)
Title: rPref
Diff between rPref versions 0.1 dated 2014-08-04 and 0.2 dated 2014-10-14
Description: Routines to select and visualize the maxima for a given strict
partial order. This especially includes the computation of the Pareto
frontier, also known as (Top-k) Skyline operator, and some
generalizations (database preferences).
Author: Patrick Roocks
Maintainer: Patrick Roocks
rPref-0.1/rPref/README |only
rPref-0.1/rPref/src/grouped.cpp |only
rPref-0.2/rPref/DESCRIPTION | 21 -
rPref-0.2/rPref/MD5 | 54 ++--
rPref-0.2/rPref/NAMESPACE | 5
rPref-0.2/rPref/NEWS | 20 +
rPref-0.2/rPref/R/RcppExports.R | 20 +
rPref-0.2/rPref/R/base-pref-macros.R | 29 +-
rPref-0.2/rPref/R/base-pref.r | 19 +
rPref-0.2/rPref/R/complex-pref.r | 37 ++-
rPref-0.2/rPref/R/pref-classes.r | 13 -
rPref-0.2/rPref/R/pref-eval.r | 247 ++++++++++++++++-----
rPref-0.2/rPref/R/rPref.r | 33 ++
rPref-0.2/rPref/R/visualize.r | 108 +++++++++
rPref-0.2/rPref/inst/test/test-algorithms.R |only
rPref-0.2/rPref/inst/test/test-psel.R | 143 ++++++++----
rPref-0.2/rPref/man/base_pref.Rd | 19 +
rPref-0.2/rPref/man/base_pref_macros.Rd | 29 +-
rPref-0.2/rPref/man/complex_pref.Rd | 36 ++-
rPref-0.2/rPref/man/get_btg.Rd | 8
rPref-0.2/rPref/man/plot_front.Rd |only
rPref-0.2/rPref/man/psel.Rd | 99 ++++++--
rPref-0.2/rPref/man/rPref.Rd | 37 +++
rPref-0.2/rPref/src/RcppExports.cpp | 77 +++++-
rPref-0.2/rPref/src/bnl.cpp | 323 +++++++++++++++++-----------
rPref-0.2/rPref/src/bnl.h | 66 +++++
rPref-0.2/rPref/src/pref-classes.cpp | 114 +++------
rPref-0.2/rPref/src/pref-classes.h | 55 ++++
rPref-0.2/rPref/src/psel-par-top.cpp |only
rPref-0.2/rPref/src/psel-par.cpp |only
rPref-0.2/rPref/src/scalagon.cpp |only
rPref-0.2/rPref/src/scalagon.h |only
32 files changed, 1149 insertions(+), 463 deletions(-)
Title: Random Effects Latent Class Analysis
Diff between randomLCA versions 0.9-0 dated 2014-09-07 and 1.0-0 dated 2014-10-14
Description: Fits random effects latent class models, as well as standard latent class models.
Author: Ken Beath
Maintainer: Ken Beath
DESCRIPTION | 8 -
MD5 | 16 +-
R/plot.randomLCA.R | 47 ------
R/randomLCA.R | 302 +++++++++++++++++++++---------------------
inst/NEWS | 350 ++++++++++++++++++++++++-------------------------
man/calc.cond.prob.Rd | 36 ++---
man/calc.cond2.prob.Rd | 36 ++---
man/fitted.Rd | 2
man/plot.Rd | 18 +-
9 files changed, 399 insertions(+), 416 deletions(-)
Title: Estimates of coefficient of overlapping for animal activity
patterns
Diff between overlap versions 0.2.3 dated 2014-06-05 and 0.2.4 dated 2014-10-14
Description: Provides functions to fit kernel density functions to
data on temporal activity patterns of animals; estimate coefficients
of overlapping of densities for two species; and calculate bootstrap
estimates of confidence intervals.
Author: Mike Meredith and Martin Ridout
Maintainer: Mike Meredith
DESCRIPTION | 8 ++--
MD5 | 21 ++++++------
NEWS | 13 +++++++
R/densityPlot.R | 80 ++++++++++++++++++++++++++--------------------
R/miscPlottingUtils.R |only
R/overlapPlot.R | 85 +++++++++++++++++++++++++++++++++----------------
build/vignette.rds |binary
data/simulatedData.rda |binary
inst/doc/overlap.pdf |binary
inst/tests/test-all.R | 36 ++++++++++++++++++++
man/densityPlot.Rd | 37 +++++++++++----------
man/overlapPlot.Rd | 26 +++++++-------
12 files changed, 201 insertions(+), 105 deletions(-)
Title: Robust meta-analysis and meta-regression.
Diff between metaplus versions 0.6-0 dated 2014-08-20 and 0.6-1 dated 2014-10-14
Description: Performs meta-analysis using standard and robust methods with confidence intervals from profile likelihood.
Author: Ken Beath
Maintainer: Ken Beath
DESCRIPTION | 8 +++---
MD5 | 28 +++++++++++++++--------
R/makestart.profilemix.metaplus.R | 1
R/profilemix.metaplus.R | 6 ++++
R/profilenorm.metaplus.R | 2 -
R/profilet.metaplus.R | 46 +++++++++++++++++++++++---------------
R/profilet.profile.R | 28 +++++++++++++++--------
inst/NEWS |only
man/metaplus-package.Rd | 2 -
man/metaplus.Rd | 12 ++++-----
man/test.outliers.Rd | 2 -
vignettes |only
12 files changed, 85 insertions(+), 50 deletions(-)
Title: Variable selection for supervised classification in high
dimension
Diff between FADA versions 1.1 dated 2014-09-01 and 1.2 dated 2014-10-14
Description: The functions provided in the FADA (Factor Adjusted Discriminant Analysis) package aim at performing supervised classification of high-dimensional and correlated profiles. The procedure combines adecorrelation step based on a
factor modeling of the dependence among covariates and a classification method. The available methods are Lasso regularized logistic model
(see Friedman et al. (2010)), sparse linear discriminant analysis (see
Clemmensen et al. (2011)), shrinkage linear and diagonal discriminant
analysis (see M. Ahdesmaki et al. (2010)). More methods of classification can be used on the decorrelated data provided by the package FADA.
Author: Emeline Perthame (Agrocampus Ouest, Rennes, France), Chloe Friguet
(Universite de Bretagne Sud, Vannes, France) and David Causeur (Agrocampus
Ouest, Rennes, France)
Maintainer: David Causeur
FADA-1.1/FADA/R/funcFADA.R |only
FADA-1.1/FADA/man/FA.Rd |only
FADA-1.1/FADA/man/decorrelate.Rd |only
FADA-1.2/FADA/DESCRIPTION | 22 +++++++++-----------
FADA-1.2/FADA/MD5 | 22 +++++++++++---------
FADA-1.2/FADA/NAMESPACE | 7 +++---
FADA-1.2/FADA/R/FADA.R |only
FADA-1.2/FADA/R/decorrelate.test.R |only
FADA-1.2/FADA/R/decorrelate.train.R |only
FADA-1.2/FADA/data/data.test.rda |binary
FADA-1.2/FADA/data/data.train.rda |binary
FADA-1.2/FADA/man/FADA-package.Rd | 36 +++++++++++++++------------------
FADA-1.2/FADA/man/FADA.Rd | 31 +++++++++++++++++-----------
FADA-1.2/FADA/man/data.train.Rd | 4 +--
FADA-1.2/FADA/man/decorrelate.test.Rd |only
FADA-1.2/FADA/man/decorrelate.train.Rd |only
16 files changed, 64 insertions(+), 58 deletions(-)
Title: Replicate and analyse InterVA4
Diff between InterVA4 versions 1.4 dated 2014-07-14 and 1.5 dated 2014-10-14
Description: The package provides an R version of the InterVA4 software for
coding cause of death from verbal autopsies. It also provides simple
graphical representation of individual and population level statistics.
Author: Zehang Li, Tyler McCormick, Sam Clark
Maintainer: Zehang Li
InterVA4-1.4/InterVA4/R/InterVA4_1.3-package.R |only
InterVA4-1.5/InterVA4/DESCRIPTION | 8 ++++----
InterVA4-1.5/InterVA4/MD5 | 6 ++++--
InterVA4-1.5/InterVA4/R/InterVA4_1.4-package.R |only
InterVA4-1.5/InterVA4/R/zzz.R |only
InterVA4-1.5/InterVA4/inst |only
6 files changed, 8 insertions(+), 6 deletions(-)
Title: Calculate probabilities of various dice-rolling events
Diff between dice versions 1.1 dated 2008-09-06 and 1.2 dated 2014-10-14
Description: This package provides utilities to calculate the probabilities of various dice-rolling events, such as the probability of rolling a four-sided die six times and getting a 4, a 3, and either a 1 or 2 among the six rolls (in any order); the probability of rolling two six-sided dice three times and getting a 10 on the first roll, followed by a 4 on the second roll, followed by anything but a 7 on the third roll; or the probabilities of each possible sum of rolling five six-sided dice, dropping the lowest two rolls, and summing the remaining dice.
Author: Dylan Arena
Maintainer: Dylan Arena
dice-1.1/dice/man/getTotalProbs.Rd |only
dice-1.2/dice/DESCRIPTION | 23 +--
dice-1.2/dice/MD5 |only
dice-1.2/dice/R/dice.R | 275 +++++++++++++++++++------------------
dice-1.2/dice/man/dice-package.Rd | 81 +++++-----
dice-1.2/dice/man/getEventProb.Rd | 7
dice-1.2/dice/man/getSumProbs.Rd |only
7 files changed, 204 insertions(+), 182 deletions(-)
Title: Soil Physical Analysis
Diff between soilphysics versions 1.1 dated 2014-07-17 and 1.2 dated 2014-10-14
Description: Basic and model-based soil physical analyses.
Author: Anderson Rodrigo da Silva, Renato Paiva de Lima
Maintainer: Anderson Rodrigo da Silva
DESCRIPTION | 8 ++++----
MD5 | 24 +++++++++++++++---------
NAMESPACE | 1 +
NEWS | 9 +++++++++
R/llwr.R |only
R/sigmaP.r | 34 +++++++++++++++++++++++++++++++---
data/skp1994.rda |only
man/bulkDensity.Rd | 4 ++--
man/compaction.Rd | 4 ++--
man/figures |only
man/fitbusscher.Rd | 2 +-
man/llwr.Rd |only
man/sigmaP.Rd | 4 ++++
man/skp1994.Rd |only
man/soilphysics-package.Rd | 16 +++++++++++++---
15 files changed, 82 insertions(+), 24 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-08-13 0.2-3
2012-10-17 0.2-2
2012-06-27 0.2-1
2012-04-12 0.1-4
2011-07-27 0.1-3
2011-06-17 0.1-1
Title: Mixed Conditional Logit
Diff between mclogit versions 0.2-7 dated 2013-09-20 and 0.3-1 dated 2014-10-14
Description: This packages provides a function to estimate parameters for
the conditional logit model (also with multinomial counts), and for the
mixed conditional logit model, or conditional logit with random effects
(random intercepts only, no random slopes yet).
The current implementation of random effects is limited to
the PQL technique, which requires large cluster sizes.
Author: Martin Elff
Maintainer: Martin Elff
DESCRIPTION | 21 -
MD5 | 15
NAMESPACE | 5
R/anova-mclogit.R |only
R/getSummary-mclogit.R |only
R/mclogit.R | 799 +++++++++++++++++++------------------------------
R/zzz.R | 42 +-
data/Transport.rda |binary
data/electors.rda |binary
inst |only
10 files changed, 354 insertions(+), 528 deletions(-)
Title: A Collection of Epidemic/Network-Related Tools
Diff between epinet versions 0.0-8.1 dated 2014-01-17 and 2.0.8 dated 2014-10-14
Description: A collection of epidemic/network-related tools. Simulates transmission of diseases through contact networks. Performs Bayesian inference on network and epidemic parameters, given epidemic data.
Author: Chris Groendyke [aut, cre],
David Welch [aut],
David Hunter [ctb]
Maintainer: Chris Groendyke
epinet-0.0-8.1/epinet/R/buildER.R |only
epinet-0.0-8.1/epinet/man/buildER.Rd |only
epinet-0.0-8.1/epinet/src/ERedgelist.c |only
epinet-0.0-8.1/epinet/src/ERedgelist.h |only
epinet-2.0.8/epinet/DESCRIPTION | 21
epinet-2.0.8/epinet/MD5 | 44 +
epinet-2.0.8/epinet/NAMESPACE | 9
epinet-2.0.8/epinet/R/BuildDyadicCovMatrix.R |only
epinet-2.0.8/epinet/R/BuildDyadicLinearERGM.R |only
epinet-2.0.8/epinet/R/NetworkEpiBayesSEIR.R | 259 +++++++----
epinet-2.0.8/epinet/R/PlotEpiTree.R | 18
epinet-2.0.8/epinet/R/SEIR.simulator.R | 74 ++-
epinet-2.0.8/epinet/R/ess.R |only
epinet-2.0.8/epinet/R/zzz.r | 5
epinet-2.0.8/epinet/data/Hagelloch.rda |binary
epinet-2.0.8/epinet/man/BuildDyadicCovMatrix.Rd |only
epinet-2.0.8/epinet/man/BuildDyadicLinearERGM.Rd |only
epinet-2.0.8/epinet/man/Hagelloch.Rd | 60 +-
epinet-2.0.8/epinet/man/NetworkEpiBayesSEIR.Rd | 124 +++--
epinet-2.0.8/epinet/man/PlotEpiTree.Rd | 43 +
epinet-2.0.8/epinet/man/SEIR.simulator.Rd | 33 -
epinet-2.0.8/epinet/man/epinet-internal.Rd | 1
epinet-2.0.8/epinet/man/ess.Rd |only
epinet-2.0.8/epinet/src/NetworkEpiMCMCSEIR.c | 535 +++++++++++++++--------
epinet-2.0.8/epinet/src/NetworkEpiMCMCSEIR.h | 40 +
epinet-2.0.8/epinet/src/NetworkFunctions.c | 74 +--
epinet-2.0.8/epinet/src/NetworkFunctions.h | 34 -
epinet-2.0.8/epinet/src/epinetdebugutils.c |only
epinet-2.0.8/epinet/src/epinetdebugutils.h |only
29 files changed, 903 insertions(+), 471 deletions(-)