Title: Testthat code. Tools to make testing fun :)
Diff between testthat versions 0.9 dated 2014-09-22 and 0.9.1 dated 2014-10-01
Description: A testing package specifically tailored for R
that's fun, flexible and easy to set up.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham
DESCRIPTION | 8 ++++----
MD5 | 2 +-
2 files changed, 5 insertions(+), 5 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-02-11 1.0
Title: Web Application Framework for R
Diff between shiny versions 0.10.2 dated 2014-09-30 and 0.10.2.1 dated 2014-10-01
Description: Shiny makes it incredibly easy to build interactive web
applications with R. Automatic "reactive" binding between inputs and
outputs and extensive pre-built widgets make it possible to build
beautiful, responsive, and powerful applications with minimal effort.
Author: RStudio, Inc.
Maintainer: Winston Chang
DESCRIPTION | 6 +++---
MD5 | 18 +++++++++---------
NEWS | 5 +++++
R/app.R | 2 +-
R/run-url.R | 6 +++---
R/server.R | 5 +++--
man/runApp.Rd | 3 ++-
man/runExample.Rd | 2 +-
man/runUrl.Rd | 6 +++---
man/shinyApp.Rd | 2 +-
10 files changed, 31 insertions(+), 24 deletions(-)
Title: Fast estimation of Gaussian Mixture Copula Models
Diff between GMCM versions 1.0.1 dated 2014-05-29 and 1.1 dated 2014-10-01
Description: Unsupervised Clustering and Meta-analysis using Gaussian Mixture
Copula Models.
Author: Anders Ellern Bilgrau, Martin Boegsted, Poul Svante Eriksen
Maintainer: Anders Ellern Bilgrau
GMCM-1.0.1/GMCM/R/par2theta.R |only
GMCM-1.0.1/GMCM/R/theta2par.R |only
GMCM-1.1/GMCM/DESCRIPTION | 19 +-
GMCM-1.1/GMCM/MD5 | 151 ++++++++++--------
GMCM-1.1/GMCM/NAMESPACE | 39 ++--
GMCM-1.1/GMCM/R/EMAlgortihm.R | 56 +++++-
GMCM-1.1/GMCM/R/EStep.R | 59 ++++++-
GMCM-1.1/GMCM/R/GMCM-package.R |only
GMCM-1.1/GMCM/R/MStep.R | 3
GMCM-1.1/GMCM/R/PseudoEMAlgorithm.R | 114 ++++++++++++-
GMCM-1.1/GMCM/R/RcppExports.R | 46 +++++
GMCM-1.1/GMCM/R/SimulateGMCMData.R | 61 +++++++
GMCM-1.1/GMCM/R/SimulateGMMData.R | 28 ++-
GMCM-1.1/GMCM/R/Uhat.R | 21 ++
GMCM-1.1/GMCM/R/choose.theta.R | 67 ++++++--
GMCM-1.1/GMCM/R/colSds.R | 23 ++
GMCM-1.1/GMCM/R/cummean.R | 16 +
GMCM-1.1/GMCM/R/dgmcm.loglik.R | 82 +++++++++
GMCM-1.1/GMCM/R/dgmm.loglik.R | 1
GMCM-1.1/GMCM/R/dgmm.loglik.marginal.R | 28 +--
GMCM-1.1/GMCM/R/fit.full.GMCM.R | 119 ++++++++++++--
GMCM-1.1/GMCM/R/fit.meta.GMCM.R | 124 ++++++++++++--
GMCM-1.1/GMCM/R/full2meta.R | 46 ++++-
GMCM-1.1/GMCM/R/get.IDR2.R | 62 +++++++
GMCM-1.1/GMCM/R/get.idr.R | 14 +
GMCM-1.1/GMCM/R/get.prob.R | 7
GMCM-1.1/GMCM/R/inv.logit.R | 7
GMCM-1.1/GMCM/R/inv.rho.transform.R | 12 -
GMCM-1.1/GMCM/R/inv.tt.R | 8
GMCM-1.1/GMCM/R/is.theta.R | 55 ++++--
GMCM-1.1/GMCM/R/logit.R | 22 ++
GMCM-1.1/GMCM/R/meta.gmcm.loglik.R | 13 +
GMCM-1.1/GMCM/R/meta2full.R | 6
GMCM-1.1/GMCM/R/pgmm.marginal.R | 2
GMCM-1.1/GMCM/R/qgmm.marginal.R | 3
GMCM-1.1/GMCM/R/rho.transform.R | 25 ++-
GMCM-1.1/GMCM/R/rowSds.R |only
GMCM-1.1/GMCM/R/rtheta.R | 58 +++++--
GMCM-1.1/GMCM/R/theta2vector.R |only
GMCM-1.1/GMCM/R/tt.R | 47 +++++
GMCM-1.1/GMCM/R/vector2theta.R |only
GMCM-1.1/GMCM/README.md | 26 +--
GMCM-1.1/GMCM/data/datalist |only
GMCM-1.1/GMCM/data/freshVsFrozen.RData |only
GMCM-1.1/GMCM/data/u133VsExon.RData |binary
GMCM-1.1/GMCM/inst/CITATION | 4
GMCM-1.1/GMCM/inst/NEWS.Rd |only
GMCM-1.1/GMCM/inst/tests |only
GMCM-1.1/GMCM/man/EMAlgorithm.Rd | 90 ++++------
GMCM-1.1/GMCM/man/EStep.Rd | 79 ++++-----
GMCM-1.1/GMCM/man/GMCM-package.Rd | 100 +++++++-----
GMCM-1.1/GMCM/man/PseudoEMAlgorithm.Rd | 136 ++++++++--------
GMCM-1.1/GMCM/man/SimulateGMCMData.Rd | 100 +++++-------
GMCM-1.1/GMCM/man/Uhat.Rd | 53 ++----
GMCM-1.1/GMCM/man/choose.theta.Rd | 70 +++-----
GMCM-1.1/GMCM/man/colSds.Rd |only
GMCM-1.1/GMCM/man/cummean.Rd | 47 +----
GMCM-1.1/GMCM/man/dgmcm.loglik.Rd | 121 +++++++-------
GMCM-1.1/GMCM/man/dmvnormal.Rd | 76 ++++-----
GMCM-1.1/GMCM/man/fit.full.GMCM.Rd | 135 ++++++++--------
GMCM-1.1/GMCM/man/fit.meta.GMCM.Rd | 140 ++++++++--------
GMCM-1.1/GMCM/man/freshVsFrozen.Rd |only
GMCM-1.1/GMCM/man/full2meta.Rd | 83 +++++-----
GMCM-1.1/GMCM/man/get.IDR.Rd | 115 +++++++------
GMCM-1.1/GMCM/man/is.theta.Rd | 65 +++----
GMCM-1.1/GMCM/man/logit.Rd | 65 +++----
GMCM-1.1/GMCM/man/rho.transform.Rd | 72 +++-----
GMCM-1.1/GMCM/man/rtheta.Rd | 71 +++-----
GMCM-1.1/GMCM/man/tt.Rd | 102 ++++++------
GMCM-1.1/GMCM/man/u133VsExon.Rd | 57 ++++--
GMCM-1.1/GMCM/src/GMCM.cpp | 273 +++++++++++++++++++++------------
GMCM-1.1/GMCM/src/RcppExports.cpp | 50 ++++++
GMCM-1.1/GMCM/tests |only
73 files changed, 2285 insertions(+), 1289 deletions(-)
Title: Tools to deal with fuzzy numbers
Diff between FuzzyNumbers versions 0.3-3 dated 2014-01-03 and 0.3-5 dated 2014-10-01
Description: The FuzzyNumbers package provides S4 classes and methods
to deal with fuzzy numbers. With them you can calculate any arithmetic
operations (e.g. by using the Zadeh extension principle),
perform approximation of arbitrary FNs by trapezoidal and piecewise
linear FNs, prepare plots of FNs for publications, etc.
Author: Marek Gagolewski [aut, cre],
Jan Caha [ctb]
Maintainer: Marek Gagolewski
FuzzyNumbers-0.3-3/FuzzyNumbers/.Rinstignore |only
FuzzyNumbers-0.3-5/FuzzyNumbers/DESCRIPTION | 19
FuzzyNumbers-0.3-5/FuzzyNumbers/MD5 | 101 +-
FuzzyNumbers-0.3-5/FuzzyNumbers/NAMESPACE | 6
FuzzyNumbers-0.3-5/FuzzyNumbers/NEWS | 11
FuzzyNumbers-0.3-5/FuzzyNumbers/R/FuzzyNumbers-package.R | 24
FuzzyNumbers-0.3-5/FuzzyNumbers/R/class-01-FuzzyNumber.R | 8
FuzzyNumbers-0.3-5/FuzzyNumbers/R/class-02-PowerFuzzyNumber.R | 7
FuzzyNumbers-0.3-5/FuzzyNumbers/R/methods-piecewiseLinearApproximation.R | 434 ++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/build |only
FuzzyNumbers-0.3-5/FuzzyNumbers/inst/doc |only
FuzzyNumbers-0.3-5/FuzzyNumbers/man/Arithmetic-methods.Rd | 328 +++---
FuzzyNumbers-0.3-5/FuzzyNumbers/man/DiscontinuousFuzzyNumber-class.Rd | 77 -
FuzzyNumbers-0.3-5/FuzzyNumbers/man/DiscontinuousFuzzyNumber.Rd | 78 -
FuzzyNumbers-0.3-5/FuzzyNumbers/man/Extract-methods.Rd | 8
FuzzyNumbers-0.3-5/FuzzyNumbers/man/FuzzyNumber-class.Rd | 296 +++---
FuzzyNumbers-0.3-5/FuzzyNumbers/man/FuzzyNumber.Rd | 212 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/FuzzyNumbers-package.Rd | 177 +--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/PiecewiseLinearFuzzyNumber-class.Rd | 179 +--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/PiecewiseLinearFuzzyNumber.Rd | 165 +--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/PowerFuzzyNumber-class.Rd | 101 +-
FuzzyNumbers-0.3-5/FuzzyNumbers/man/PowerFuzzyNumber.Rd | 77 -
FuzzyNumbers-0.3-5/FuzzyNumbers/man/TrapezoidalFuzzyNumber-class.Rd | 142 +-
FuzzyNumbers-0.3-5/FuzzyNumbers/man/TrapezoidalFuzzyNumber.Rd | 123 +-
FuzzyNumbers-0.3-5/FuzzyNumbers/man/TriangularFuzzyNumber.Rd | 124 +-
FuzzyNumbers-0.3-5/FuzzyNumbers/man/alphaInterval-methods.Rd | 453 ++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/alphacut-methods.Rd | 201 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/ambiguity-methods.Rd | 211 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/approxInvert.Rd | 22
FuzzyNumbers-0.3-5/FuzzyNumbers/man/as.FuzzyNumber.Rd | 240 ++---
FuzzyNumbers-0.3-5/FuzzyNumbers/man/as.PiecewiseLinearFuzzyNumber.Rd | 446 ++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/as.PowerFuzzyNumber.Rd | 471 ++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/as.TrapezoidalFuzzyNumber.Rd | 475 +++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/as.character-methods.Rd | 388 ++++----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/convertAlpha.Rd | 9
FuzzyNumbers-0.3-5/FuzzyNumbers/man/convertSide.Rd | 15
FuzzyNumbers-0.3-5/FuzzyNumbers/man/core-methods.Rd | 191 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/distance-methods.Rd | 224 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/evaluate-methods.Rd | 187 ++-
FuzzyNumbers-0.3-5/FuzzyNumbers/man/expectedInterval-methods.Rd | 458 ++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/expectedValue-methods.Rd | 211 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/fapply-methods.Rd | 180 +--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/integrateAlpha-methods.Rd | 223 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/integrate_discont_val.Rd | 21
FuzzyNumbers-0.3-5/FuzzyNumbers/man/piecewiseLinearApproximation-methods.Rd | 279 ++---
FuzzyNumbers-0.3-5/FuzzyNumbers/man/plot-methods.Rd | 472 ++++-----
FuzzyNumbers-0.3-5/FuzzyNumbers/man/show-methods.Rd | 188 ++-
FuzzyNumbers-0.3-5/FuzzyNumbers/man/supp-methods.Rd | 191 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/trapezoidalApproximation-methods.Rd | 280 ++---
FuzzyNumbers-0.3-5/FuzzyNumbers/man/value-methods.Rd | 216 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/weightedExpectedValue-methods.Rd | 216 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/man/width-methods.Rd | 212 ++--
FuzzyNumbers-0.3-5/FuzzyNumbers/vignettes |only
53 files changed, 4716 insertions(+), 4661 deletions(-)
Title: Convenience Functions for Botanists to Create Specimens Indices
Diff between exsic versions 1.0 dated 2013-03-26 and 1.1.1 dated 2014-10-01
Description: The package provides tools for botanists, plant taxonomists,
curators of plant genebanks and perhaps other biological collections.
Author: Reinhard Simon [aut, cre] (CIP),
David M. Spooner [aut] (USDA),
International Potato Center [cph]
Maintainer: Reinhard Simon
exsic-1.0/exsic/R/exsic-new.R |only
exsic-1.1.1/exsic/DESCRIPTION | 27
exsic-1.1.1/exsic/LICENSE |only
exsic-1.1.1/exsic/MD5 | 66
exsic-1.1.1/exsic/NAMESPACE | 34
exsic-1.1.1/exsic/NEWS |only
exsic-1.1.1/exsic/R/exsicnew.R |only
exsic-1.1.1/exsic/R/utils.R | 501 +++---
exsic-1.1.1/exsic/inst/examples/exsic.R | 51
exsic-1.1.1/exsic/inst/reports |only
exsic-1.1.1/exsic/inst/samples/exsic.R |only
exsic-1.1.1/exsic/inst/samples/exsic.csv | 2002 +++++++++++++--------------
exsic-1.1.1/exsic/inst/www |only
exsic-1.1.1/exsic/man/coll.cite.Rd | 108 -
exsic-1.1.1/exsic/man/exsic-package.Rd | 130 -
exsic-1.1.1/exsic/man/exsic.Rd | 148 -
exsic-1.1.1/exsic/man/format.ASPT.Rd | 56
exsic-1.1.1/exsic/man/format.NYBG.Rd | 59
exsic-1.1.1/exsic/man/format.PK.Rd | 57
exsic-1.1.1/exsic/man/format.SBMG.Rd | 50
exsic-1.1.1/exsic/man/index.citations.Rd | 61
exsic-1.1.1/exsic/man/index.collections.Rd | 62
exsic-1.1.1/exsic/man/index.countries.Rd | 57
exsic-1.1.1/exsic/man/index.species.Rd | 57
exsic-1.1.1/exsic/man/index.species.short.Rd | 57
exsic-1.1.1/exsic/man/is.exsic.Rd | 51
exsic-1.1.1/exsic/man/is.format.Rd | 57
exsic-1.1.1/exsic/man/is.sortfilter.Rd | 50
exsic-1.1.1/exsic/man/potato.Rd | 44
exsic-1.1.1/exsic/man/prepare.table.Rd | 70
exsic-1.1.1/exsic/man/read.exsic.Rd | 74
exsic-1.1.1/exsic/man/section.exsic.Rd | 59
exsic-1.1.1/exsic/man/sort.specs.Rd | 24
exsic-1.1.1/exsic/man/strip.final.dot.Rd | 59
exsic-1.1.1/exsic/man/write.exsic.Rd | 56
35 files changed, 2096 insertions(+), 2031 deletions(-)
Title: Optimisation with Continuous Convex Piecewise (Linear and
Quadratic) Functions
Diff between ConConPiWiFun versions 0.4.2 dated 2013-11-05 and 0.4.3 dated 2014-10-01
Description: Continuous convex piecewise linear (ccpl) resp. quadratic (ccpq) functions can be implemented with sorted breakpoints and slopes. This includes functions that are ccpl (resp. ccpq) on a convex set (i.e. an interval or a point) and infinite out of the domain. These functions can be very useful for a large class of optimisation problems. Efficient manipulation (such as log(N) insertion) of such data structure is obtained with map standard template library of C++ (that hides balanced trees). This package is a wrapper on such a class based on Rcpp modules.
Author: Robin Girard
Maintainer: Robin Girard
DESCRIPTION | 10
MD5 | 42
NAMESPACE | 8
R/test |only
R/zzz.R | 148 +-
inst/include/ConConPiWiFun.h | 118 -
inst/include/convex_function_manip.hpp | 160 +-
inst/include/convex_functions_tools.hpp | 244 +--
inst/include/cplfunction.hpp | 2098 ++++++++++++++++----------------
inst/include/cplfunctionvec.hpp | 591 +++++----
inst/include/cpqfunction.hpp | 1226 +++++++++---------
inst/include/cpqfunctionvec.hpp | 283 ++--
man/ConConPiWiFun-package.Rd | 76 -
man/cplfunction.Rd | 172 +-
man/cplfunctionvec.Rd | 162 +-
man/cpqfunction.Rd | 160 +-
man/cpqfunctionvec.Rd | 130 -
src/Makevars | 2
src/Makevars.win | 6
src/Modules.cc | 16
20 files changed, 2889 insertions(+), 2763 deletions(-)
Title: A Package for Coincidence Analysis (CNA)
Diff between cna versions 0.1-3 dated 2014-05-12 and 1.0-0 dated 2014-10-01
Description: Provides functions for performing Coincidence Analysis (CNA).
Author: Ambuehl, Mathias, Michael Baumgartner, Ruedi Epple, Alexis Kauffmann and Alrik Thiem
Maintainer: Alexis Kauffmann
cna-0.1-3/cna/man/cna-package.Rd |only
cna-1.0-0/cna/DESCRIPTION | 20 -
cna-1.0-0/cna/INDEX |only
cna-1.0-0/cna/MD5 | 43 ++--
cna-1.0-0/cna/NAMESPACE | 11 -
cna-1.0-0/cna/R/cna.r | 168 +++++++++------
cna-1.0-0/cna/R/cna_aux.r | 271 ++++++++++++-------------
cna-1.0-0/cna/R/condTbl.r | 222 ++++++++++----------
cna-1.0-0/cna/R/condition.r | 18 -
cna-1.0-0/cna/R/onAttach.R |only
cna-1.0-0/cna/R/truthTab.r | 18 -
cna-1.0-0/cna/data |only
cna-1.0-0/cna/inst |only
cna-1.0-0/cna/man/cna.Rd | 395 +++++++++++++++++++++++++++++++------
cna-1.0-0/cna/man/cna.package.Rd |only
cna-1.0-0/cna/man/condTbl.Rd | 121 ++++++++---
cna-1.0-0/cna/man/condition.Rd | 141 +++++++++----
cna-1.0-0/cna/man/d.educate.Rd |only
cna-1.0-0/cna/man/d.irrigate.Rd |only
cna-1.0-0/cna/man/d.minaret.Rd |only
cna-1.0-0/cna/man/d.performance.Rd |only
cna-1.0-0/cna/man/d.volatile.Rd |only
cna-1.0-0/cna/man/d.women.Rd |only
cna-1.0-0/cna/man/figures |only
cna-1.0-0/cna/man/truthTab.Rd | 130 +++++++++---
25 files changed, 1053 insertions(+), 505 deletions(-)
Title: Tools to create an internally consistent, mini version of CRAN
with selected packages only.
Diff between miniCRAN versions 0.1-0 dated 2014-09-16 and 0.1-1 dated 2014-10-01
Description: Tools to create an internally consistent, mini version of CRAN with
selected packages only.
Author: Revolution Analytics [aut],
Andrie de Vries [aut, cre]
Maintainer: Andrie de
Vries
DESCRIPTION | 10 +++----
MD5 | 26 ++++++++++---------
R/addPackages.R | 7 ++---
R/makeDepGraph.R | 36 ++++++++------------------
R/makeRepo.R | 24 +++++++++++------
R/pkgDep.R | 2 -
inst/doc/miniCRAN.html | 42 +++++++++++++++++--------------
inst/examples/example_addPackage.R | 7 ++---
inst/examples/example_plot.pkgDepGraph.R | 2 -
man/addPackageGithub.Rd | 11 +++-----
man/plot.pkgDepGraph.Rd | 2 -
tests/test-all.R |only
tests/testthat/test-2-makeDepGraph.R | 15 +++++++++++
tests/testthat/test-3-makeRepo.R |only
vignettes/figure/so-tags.png |binary
15 files changed, 100 insertions(+), 84 deletions(-)
Title: Utility Functions by Youyi & Krisz
Diff between kyotil versions 2014.4-1 dated 2014-04-01 and 2014.10-5 dated 2014-10-01
Description: A miscellaneous set of functions for printing, plotting, kernels, etc. Additional contributors are acknowledged on individual function help pages.
Author: Youyi Fong
Maintainer: Youyi Fong
ChangeLog | 20 +
DESCRIPTION | 8
MD5 | 52 ++--
NAMESPACE | 8
R/base.R | 8
R/deprecated.R |only
R/kernel.R | 398 +++++++++++++++++++++--------------
R/matrix2.R | 59 ++++-
R/plotting.R | 57 ++---
R/print.R | 4
R/regression.model.functions.R | 43 ++-
R/string.math.matrix.R |only
R/sysdata.rda |only
inst/doc/kyotil-vignette.pdf |binary
inst/unitTests/runit.kernel.R | 23 +-
inst/unitTests/runit.kyotil.R | 8
inst/unitTests/runit.matrix2.R | 7
man/base.Rd | 6
man/getK.Rd | 4
man/misc.Rd |only
man/plotting.Rd | 45 ++-
man/regression.model.functions.Rd | 4
src/Call_kernel.c |only
src/Call_matrix.c |only
src/fromKutil.c | 5
src/kernels.c | 318 ++++++++++-----------------
src/kernels.h | 30 ++
src/matrix.c | 187 ++++++++--------
src/matrix.h | 9
vignettes/figure/minimal-corplot.pdf |binary
30 files changed, 734 insertions(+), 569 deletions(-)
Title: Functions for a variety of stylometric analyses
Diff between stylo versions 0.5.8 dated 2014-09-03 and 0.5.8-1 dated 2014-10-01
Description: A number of functions, supplemented by GUI, to perform various
analyses in the field of computational stylistics, authorship
attribution, etc.
Author: Maciej Eder, Jan Rybicki, Mike Kestemont
Maintainer: Maciej Eder
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
NEWS | 2 ++
R/stylo.R | 17 +++++++++--------
4 files changed, 18 insertions(+), 15 deletions(-)
Title: Simulation and Analysis of Random Fields
Diff between RandomFields versions 3.0.42 dated 2014-09-22 and 3.0.44 dated 2014-10-01
Description: Simulation of Gaussian and extreme value random fields;
conditional simulation; kriging; maximum likelihood estimation
Author: Martin Schlather [aut, cre], Alexander Malinowski [aut], Marco Oesting [aut], Daphne Boecker [aut], Kirstin Strokorb [aut], Sebastian Engelke [aut], Johannes Martini [aut], Felix Ballani [aut], Peter Menck [aut], Sebastian Gross [aut], Ulrike Ober [ctb], Katharina Burmeister [ctb], Juliane Manitz [ctb], Paulo Ribeiro [ctb], Richard Singleton [ctb], Ben Pfaff [ctb], R Core Team [ctb]
Maintainer: Martin Schlather
RandomFields-3.0.42/RandomFields/build |only
RandomFields-3.0.42/RandomFields/inst/doc/multivariate_jss.R |only
RandomFields-3.0.42/RandomFields/inst/doc/multivariate_jss.Rnw |only
RandomFields-3.0.42/RandomFields/vignettes |only
RandomFields-3.0.44/RandomFields/DESCRIPTION | 6
RandomFields-3.0.44/RandomFields/MD5 | 95 +--
RandomFields-3.0.44/RandomFields/R/Methods-RFestimation.R | 8
RandomFields-3.0.44/RandomFields/R/Methods-RFmodel.R | 46 -
RandomFields-3.0.44/RandomFields/R/Methods-RFsp.R | 44 +
RandomFields-3.0.44/RandomFields/R/Methods-aux.R | 10
RandomFields-3.0.44/RandomFields/R/RFsp-plots.R | 36 -
RandomFields-3.0.44/RandomFields/R/auxiliary.R | 4
RandomFields-3.0.44/RandomFields/R/fitgauss.R | 1
RandomFields-3.0.44/RandomFields/R/getNset.R | 29 -
RandomFields-3.0.44/RandomFields/R/nicht.nachladbar.R | 8
RandomFields-3.0.44/RandomFields/R/rf.R | 4
RandomFields-3.0.44/RandomFields/data/weather.rda |binary
RandomFields-3.0.44/RandomFields/inst/CITATION | 3
RandomFields-3.0.44/RandomFields/inst/doc/multivariate_jss.pdf |binary
RandomFields-3.0.44/RandomFields/inst/doc/version2.pdf |binary
RandomFields-3.0.44/RandomFields/man/Circulant.Rd | 2
RandomFields-3.0.44/RandomFields/man/RFgetModelInfo.Rd | 4
RandomFields-3.0.44/RandomFields/man/RFgetModelNames.Rd | 27 -
RandomFields-3.0.44/RandomFields/man/RFoptions.Rd | 9
RandomFields-3.0.44/RandomFields/man/RFoptionsAdvanced.Rd | 8
RandomFields-3.0.44/RandomFields/man/RFsimulate.Rd | 4
RandomFields-3.0.44/RandomFields/man/RFsimulateAdvanced.Rd | 60 +-
RandomFields-3.0.44/RandomFields/man/RMS.Rd | 9
RandomFields-3.0.44/RandomFields/man/RMgauss.Rd | 1
RandomFields-3.0.44/RandomFields/man/papers.GSPSJ06.Rd | 2
RandomFields-3.0.44/RandomFields/man/papers.jss14.Rd | 10
RandomFields-3.0.44/RandomFields/man/plot-method.Rd | 28 -
RandomFields-3.0.44/RandomFields/src/Families.cc | 6
RandomFields-3.0.44/RandomFields/src/Huetchen.cc | 9
RandomFields-3.0.44/RandomFields/src/InternalCov.cc | 34 -
RandomFields-3.0.44/RandomFields/src/KeyInfo.cc | 18
RandomFields-3.0.44/RandomFields/src/MLE.cc | 5
RandomFields-3.0.44/RandomFields/src/Primitive.cc | 43 -
RandomFields-3.0.44/RandomFields/src/RF.h | 26
RandomFields-3.0.44/RandomFields/src/auxiliary.cc | 40 +
RandomFields-3.0.44/RandomFields/src/circulant.cc | 3
RandomFields-3.0.44/RandomFields/src/extremes.cc | 101 ++-
RandomFields-3.0.44/RandomFields/src/getNset.cc | 44 +
RandomFields-3.0.44/RandomFields/src/initNerror.cc | 10
RandomFields-3.0.44/RandomFields/src/operator.cc | 4
RandomFields-3.0.44/RandomFields/src/plusmalS.cc | 265 +++++-----
RandomFields-3.0.44/RandomFields/src/primitive.h | 8
RandomFields-3.0.44/RandomFields/src/randomshape.h | 6
RandomFields-3.0.44/RandomFields/src/simu.cc | 19
RandomFields-3.0.44/RandomFields/src/trend.cc | 6
50 files changed, 663 insertions(+), 442 deletions(-)
Title: Distributed Multinomial Regression
Diff between distrom versions 0.2 dated 2014-01-31 and 0.3-1 dated 2014-10-01
Description: Estimation for a multinomial logistic regression factorized into independent Poisson log regressions. See the textir package for applications in multinomial inverse regression analysis of text.
Author: Matt Taddy
Maintainer: Matt Taddy
distrom-0.2/distrom/R/cv.dmr.R |only
distrom-0.2/distrom/man/cv.dmr.rd |only
distrom-0.3-1/distrom/DESCRIPTION | 12 +--
distrom-0.3-1/distrom/MD5 | 12 +--
distrom-0.3-1/distrom/NAMESPACE | 8 --
distrom-0.3-1/distrom/R/dmr.R | 109 ++++++-----------------------
distrom-0.3-1/distrom/man/dmr.Rd | 24 +++---
distrom-0.3-1/distrom/man/dmrcoef-class.Rd | 3
8 files changed, 52 insertions(+), 116 deletions(-)
Title: deducorrect: Deductive correction, deductive imputation, and
deterministic correction.
Diff between deducorrect versions 1.3-4 dated 2013-07-01 and 1.3-5 dated 2014-10-01
Description: A collection of methods for automated data cleaning where all
actions are logged.
Author: Mark van der Loo, Edwin de Jonge, and Sander
Scholtus
Maintainer: Mark van der Loo
deducorrect-1.3-4/deducorrect/REFERENCES.bib |only
deducorrect-1.3-4/deducorrect/inst/doc/deducorrect-vignette.R |only
deducorrect-1.3-5/deducorrect/DESCRIPTION | 17 -
deducorrect-1.3-5/deducorrect/MD5 | 67 ++--
deducorrect-1.3-5/deducorrect/NAMESPACE | 34 +-
deducorrect-1.3-5/deducorrect/NEWS | 3
deducorrect-1.3-5/deducorrect/R/deductiveLevels.R | 14
deducorrect-1.3-5/deducorrect/R/deductiveZeros.R | 2
deducorrect-1.3-5/deducorrect/build |only
deducorrect-1.3-5/deducorrect/inst/doc/deducorrect-vignette.pdf |binary
deducorrect-1.3-5/deducorrect/man/allTotallyUnimodular.Rd | 11
deducorrect-1.3-5/deducorrect/man/applyFix.Rd | 14
deducorrect-1.3-5/deducorrect/man/correctRounding.Rd | 62 +--
deducorrect-1.3-5/deducorrect/man/correctSigns.Rd | 159 ++++------
deducorrect-1.3-5/deducorrect/man/correctTypos.Rd | 127 ++-----
deducorrect-1.3-5/deducorrect/man/correctWithRules.Rd | 33 --
deducorrect-1.3-5/deducorrect/man/correctionRules.Rd | 91 ++---
deducorrect-1.3-5/deducorrect/man/damerauLevenshteinDistance.Rd | 36 +-
deducorrect-1.3-5/deducorrect/man/deduImpute.Rd | 90 ++---
deducorrect-1.3-5/deducorrect/man/deducorrect-object.Rd | 42 +-
deducorrect-1.3-5/deducorrect/man/deducorrect-package.Rd | 27 -
deducorrect-1.3-5/deducorrect/man/deductiveLevels.Rd | 32 --
deducorrect-1.3-5/deducorrect/man/deductiveZeros.Rd | 67 +---
deducorrect-1.3-5/deducorrect/man/getSignCorrection.Rd | 60 +--
deducorrect-1.3-5/deducorrect/man/getTypoCorrection.Rd | 27 -
deducorrect-1.3-5/deducorrect/man/getUsername.Rd | 11
deducorrect-1.3-5/deducorrect/man/hellerTompkins.Rd | 17 -
deducorrect-1.3-5/deducorrect/man/imputess.Rd | 56 +--
deducorrect-1.3-5/deducorrect/man/isTotallyUnimodular.Rd | 43 +-
deducorrect-1.3-5/deducorrect/man/newdeducorrect.Rd | 21 -
deducorrect-1.3-5/deducorrect/man/raghavachari.Rd | 12
deducorrect-1.3-5/deducorrect/man/reduceMatrix.Rd | 34 +-
deducorrect-1.3-5/deducorrect/man/scapegoat.Rd | 5
deducorrect-1.3-5/deducorrect/man/solSpace.Rd | 85 ++---
deducorrect-1.3-5/deducorrect/man/status.Rd | 35 +-
deducorrect-1.3-5/deducorrect/man/tree.Rd | 19 -
36 files changed, 589 insertions(+), 764 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2011-02-23 1.1-7
2007-11-03 1.1-6
2007-08-27 1.1-5
2007-04-04 1.1-4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-04-09 0.2
2012-12-26 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2010-01-20 2.2
2009-09-22 2.1
Title: Turbulence time series Event Detection and classification
Diff between TED versions 1.0 dated 2014-05-10 and 1.1 dated 2014-10-01
Description: TED performs event detection and classification in turbulence time series.
Author: Yanfei Kang, Danijel Belusic and Kate Smith-Miles
Maintainer: Yanfei Kang
DESCRIPTION | 11 ++---
MD5 | 40 ++++++++++----------
NAMESPACE | 2 -
R/aniplotevents.R | 4 +-
R/eventCluster.R | 52 ++++++++++++++------------
R/eventDetection.R | 20 ++++++----
R/noiseTests.R | 6 ++-
R/plotevents.R | 20 ++++++----
R/ur.za.fast.R | 13 +++---
man/aniplotevents.Rd | 57 +++++++++++------------------
man/cbfs.Rd | 38 ++++++-------------
man/cbfs_red.Rd | 19 ++++-----
man/detrendc.Rd | 13 ++----
man/eventCluster.Rd | 95 +++++++++++++++++++++++--------------------------
man/eventDetection.Rd | 75 +++++++++++++++++---------------------
man/eventExtraction.Rd | 22 ++++-------
man/measures.Rd | 25 +++++-------
man/noiseTests.Rd | 77 ++++++++++++++-------------------------
man/plotevents.Rd | 40 ++++++++++----------
man/ts2mat.Rd | 11 ++---
man/ur.za.fast.Rd | 36 +++++++-----------
21 files changed, 305 insertions(+), 371 deletions(-)
Title: Gamma Lasso Regression
Diff between gamlr versions 1.12 dated 2014-09-15 and 1.12-1 dated 2014-10-01
Description: This package implements the gamma lasso algorithm for regularization paths corresponding to a range of non-convex cost functions between L0 and L1 norms. As much as possible, usage is analogous to that for the glmnet package (which does the same thing for penalization between L1 and L2 norms).
Author: Matt Taddy
Maintainer: Matt Taddy
DESCRIPTION | 8 ++++----
MD5 | 4 ++--
R/cv.gamlr.R | 6 ++++--
3 files changed, 10 insertions(+), 8 deletions(-)
Title: Fixed Size Subset Sum Solution
Diff between FLSSS versions 2.0 dated 2014-09-29 and 2.0.1 dated 2014-10-01
Description: Solve an approximate Subset Sum Problem by introducing a recursive compression algorithm
Author: Charlie Wusuo Liu
Maintainer: Charlie Wusuo Liu
FLSSS-2.0.1/FLSSS/DESCRIPTION | 11 +--
FLSSS-2.0.1/FLSSS/MD5 | 8 +-
FLSSS-2.0.1/FLSSS/R/FLSSS_20140930.r |only
FLSSS-2.0.1/FLSSS/man/FLSSS-package.Rd | 17 ++---
FLSSS-2.0.1/FLSSS/src/FLSSS_20140929.cpp | 91 +++++++++++++++++++++----------
FLSSS-2.0/FLSSS/R/FLSSS_20140929.r |only
6 files changed, 81 insertions(+), 46 deletions(-)
Title: Mathematical Modeling of Infectious Disease
Diff between EpiModel versions 1.0.2 dated 2014-08-30 and 1.1 dated 2014-10-01
Description: Tools for simulating mathematical models of infectious disease.
Epidemic model classes include deterministic compartmental models,
stochastic individual contact models, and stochastic network models.
Disease types include SI, SIR, and SIS epidemics with and without
demography, with tools available for expansion to model complex epidemic
processes.
Author: Samuel Jenness [cre, aut],
Steven M. Goodreau [aut],
Martina Morris [aut],
Li Wang [ctb]
Maintainer: Samuel Jenness
DESCRIPTION | 14 -
MD5 | 235 +++++++++++++-------------
NAMESPACE | 10 -
NEWS | 109 ++++++++++++
R/EpiModel-package.r | 10 -
R/as.data.frame.R | 2
R/control.R | 343 ++++++++++++++++----------------------
R/crosscheck.R | 332 ++++++++++++++++++++----------------
R/dcm.R | 5
R/get.R |only
R/icm.R | 24 +-
R/icm.mod.init.R | 109 +++++-------
R/icm.mod.status.R | 123 ++++++-------
R/icm.mod.vital.R | 114 ++++++------
R/icm.utils.R | 124 ++++++-------
R/init.R | 109 ++++++------
R/merge.R | 8
R/modules.net.R | 6
R/net.mod.init.R | 222 +++++++++++++-----------
R/net.mod.simnet.R | 60 +++---
R/net.mod.status.R | 135 +++++++-------
R/net.mod.vital.R | 187 ++++++++++----------
R/net.utils.R | 264 ++++++++++++++---------------
R/netdx.R | 181 ++++++++++++++------
R/netest.R | 32 ++-
R/netsim.R | 179 +++++++++++++++++--
R/param.R | 122 +++++++------
R/plot.R | 104 ++++++-----
R/print.r | 33 ++-
R/saveout.R | 113 ++++++------
R/summary.R | 7
R/verbose.R | 148 +++++++++-------
inst/doc/Intro.pdf |binary
inst/shiny/dcm/server.R | 129 ++++++--------
inst/shiny/dcm/ui.R | 201 +++++++++++-----------
inst/shiny/icm/server.R | 134 ++++++--------
inst/shiny/icm/ui.R | 231 +++++++++++++------------
man/EpiModel-package.Rd | 8
man/as.data.frame.dcm.Rd | 6
man/as.data.frame.icm.Rd | 10 -
man/bipvals.Rd | 2
man/births.icm.Rd | 6
man/births.net.Rd | 6
man/brewer_ramp.Rd | 6
man/check_bip_degdist.Rd | 2
man/color_tea.Rd | 6
man/comp_plot.Rd | 4
man/conc_microsim.Rd | 2
man/control.dcm.Rd | 5
man/control.icm.Rd | 16 +
man/control.net.Rd | 44 +++-
man/copy_toall_attr.Rd | 12 -
man/crosscheck.dcm.Rd | 2
man/crosscheck.icm.Rd | 2
man/crosscheck.net.Rd | 2
man/dcm.Rd | 2
man/dcm.mods.Rd | 2
man/deaths.icm.Rd | 6
man/deaths.net.Rd | 6
man/discord_edgelist.Rd | 6
man/dissolution_coefs.Rd | 2
man/edgelist_censor.Rd | 2
man/edgelist_meanage.Rd | 2
man/edges_correct.Rd | 6
man/epiweb.Rd | 2
man/get_attr_prop.Rd | 12 -
man/get_formula_terms.Rd | 2
man/get_network.Rd |only
man/get_nwparam.Rd |only
man/get_nwstats.Rd |only
man/get_prev.icm.Rd | 6
man/get_prev.net.Rd | 6
man/get_transmat.Rd |only
man/icm.Rd | 2
man/idmode.Rd | 2
man/infection.icm.Rd | 6
man/infection.net.Rd | 8
man/init.dcm.Rd | 2
man/init.icm.Rd | 5
man/init.net.Rd | 5
man/init_pids.Rd | 2
man/init_status.icm.Rd | 6
man/init_status.net.Rd | 6
man/initialize.icm.Rd | 4
man/initialize.net.Rd | 8
man/merge.icm.Rd | 2
man/merge.netsim.Rd | 2
man/modeids.Rd | 2
man/modules.icm.Rd | 2
man/modules.net.Rd | 8
man/netdx.Rd | 10 -
man/netest.Rd | 14 -
man/netsim.Rd | 2
man/netsim_parallel.Rd |only
man/node_active.Rd | 2
man/param.dcm.Rd | 2
man/param.icm.Rd | 2
man/param.net.Rd | 2
man/plot.conc_microsim.Rd | 2
man/plot.dcm.Rd | 2
man/plot.icm.Rd | 15 +
man/plot.netdx.Rd | 2
man/plot.netsim.Rd | 40 ++--
man/recovery.icm.Rd | 6
man/recovery.net.Rd | 6
man/resim_nets.Rd | 8
man/saveout.dcm.Rd | 6
man/saveout.icm.Rd | 8
man/saveout.net.Rd | 8
man/sim_nets.Rd | 6
man/split_bip.Rd | 6
man/summary.dcm.Rd | 2
man/summary.icm.Rd | 2
man/summary.netest.Rd | 2
man/summary.netsim.Rd | 2
man/transco.Rd | 2
man/update_nwattr.Rd | 2
man/verbose.net.Rd |only
tests/testthat/test-diagnostics.R | 6
tests/testthat/test-get.R |only
tests/testthat/test-netattr.R | 6
tests/testthat/test-newdcm.R |only
tests/testthat/test-newicm.R |only
tests/testthat/test-newnet.R |only
124 files changed, 2560 insertions(+), 2047 deletions(-)
Title: Plots of the Empirical Attainment Function
Diff between eaf versions 1.05 dated 2013-02-20 and 1.06 dated 2014-10-01
Description: Plots of the empirical attainment function for two objectives.
Author: Carlos Fonseca, Luis Paquete, Thomas Stützle, Manuel López-Ibáñez and Marco Chiarandini.
Maintainer: Manuel López-Ibáñez
eaf-1.05/eaf/doc |only
eaf-1.06/eaf/DESCRIPTION | 14 -
eaf-1.06/eaf/MD5 | 33 ++--
eaf-1.06/eaf/NEWS | 19 ++
eaf-1.06/eaf/R/eaf.R | 99 +++++++------
eaf-1.06/eaf/inst/scripts/eaf/eaf.c | 30 ++--
eaf-1.06/eaf/inst/scripts/eaf/eaf.h | 5
eaf-1.06/eaf/inst/scripts/eaf/eaf_main.c | 54 ++++++-
eaf-1.06/eaf/inst/scripts/eaf/svn_version | 2
eaf-1.06/eaf/inst/scripts/eafdiff/eafdiff.pl | 54 ++++---
eaf-1.06/eaf/inst/scripts/eafplot/eafplot.pl | 191 +++++++++++++++++----------
eaf-1.06/eaf/man/eaf-package.Rd | 14 -
eaf-1.06/eaf/man/eafdiffplot.Rd | 5
eaf-1.06/eaf/man/eafplot.Rd | 2
eaf-1.06/eaf/src/eaf.c | 30 ++--
eaf-1.06/eaf/src/eaf.h | 5
eaf-1.06/eaf/src/eaf_io_priv.h | 24 +--
17 files changed, 358 insertions(+), 223 deletions(-)