Title: Bayesian Inference for Beta Regression and Zero-or-One Inflated
Beta Regression
Description: Fits beta regression and zero-or-one inflated beta regression and obtains Bayesian Inference of the model via the Markov Chain Monte Carlo approach implemented in JAGS.
Author: Fang Liu <fang.liu.131@nd.edu> with contributions from Yunchuan Kong <ykong@cuhk.edu.hk>
Maintainer: Fang Liu <fang.liu.131@nd.edu>
Diff between zoib versions 1.3.1 dated 2015-08-15 and 1.3.2 dated 2015-09-29
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- R/joint.1z.R | 25 +++++++++++-------------- R/joint.1z0.R | 15 ++++++--------- R/joint.1z01.R | 23 +++++++++-------------- R/joint.1z1.R | 17 +++++++---------- R/joint.2z.R | 39 +++++++++++++++++++++------------------ R/joint.2z0.R | 40 ++++++++++++++++++++-------------------- R/joint.2z01.R | 45 ++++++++++++++++++++++----------------------- R/joint.2z1.R | 42 +++++++++++++++++++++--------------------- R/sep.2z.R | 28 ++++++++++++++++------------ R/sep.2z0.R | 25 ++++++++++++++----------- R/sep.2z01.R | 25 ++++++++++++++----------- R/sep.2z1.R | 27 +++++++++++++++------------ man/zoib-package.Rd | 4 ++-- man/zoib.Rd | 4 ++-- 16 files changed, 199 insertions(+), 198 deletions(-)
Title: Compute the Median Ranking(s) According to the Kemeny's
Axiomatic Approach
Description: Compute the median ranking according the Kemeny's axiomatic approach. Rankings can or cannot contain ties, rankings can be both complete or incomplete.
Author: Antonio D'Ambrosio <antdambr@unina.it>, Sonia Amodio <sonia.amodio@unina.it>
Maintainer: Antonio D'Ambrosio <antdambr@unina.it>
Diff between ConsRank versions 1.0.1 dated 2015-09-24 and 1.0.2 dated 2015-09-29
DESCRIPTION | 8 ++--- MD5 | 14 ++++---- R/ALL.r | 76 +++++++++++++++++++++++++++++++++++++----------- man/BBconsensus.Rd | 8 +++-- man/BBconsensus2.Rd | 2 - man/ConsRank-package.Rd | 4 +- man/FASTcons.Rd | 5 ++- man/QuickCons.Rd | 5 ++- 8 files changed, 86 insertions(+), 36 deletions(-)
Title: Random Forests Model Selection and Performance Evaluation
Description: Utilities for Random Forest model selection, class balance
correction, significance test, cross validation and partial dependency
plots.
Author: Jeffrey S. Evans [cre, aut],
Melanie A. Murphy [ctb]
Maintainer: Jeffrey S. Evans <jeffrey_evans@tnc.org>
Diff between rfUtilities versions 1.0-1 dated 2015-02-24 and 1.0-2 dated 2015-09-29
DESCRIPTION | 10 +- MD5 | 30 +++---- R/rf.imp.freq.R |only R/rf.modelSel.R | 187 ++++++++++++++++++++++---------------------- R/rf.partial.ci.R | 2 R/rf.partial.prob.R | 22 ++--- R/rf.significance.R | 40 ++++----- inst/NEWS | 6 + man/multi.collinear.Rd | 4 man/rf.class.sensitivity.Rd | 2 man/rf.classBalance.Rd | 2 man/rf.crossValidation.Rd | 2 man/rf.imp.freq.Rd |only man/rf.modelSel.Rd | 21 +++- man/rf.partial.ci.Rd | 2 man/rf.partial.prob.Rd | 2 man/rf.significance.Rd | 2 17 files changed, 175 insertions(+), 159 deletions(-)
More information about PortfolioEffectHFT at CRAN
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Title: Protracted Birth-Death Model of Diversification
Description: Conducts maximum likelihood analysis and simulation of the protracted speciation model.
Author: Rampal S. Etienne
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>
Diff between PBD versions 1.0 dated 2014-05-26 and 1.1 dated 2015-09-29
PBD-1.0/PBD/R/brts2phylo.R |only PBD-1.1/PBD/DESCRIPTION | 15 +-- PBD-1.1/PBD/MD5 | 16 +-- PBD-1.1/PBD/NAMESPACE | 7 + PBD-1.1/PBD/R/pbd_ML.R | 1 PBD-1.1/PBD/R/pbd_sim.R | 186 ++++++++++------------------------------ PBD-1.1/PBD/R/pbd_utils.R |only PBD-1.1/PBD/man/PBD-internal.Rd | 8 + PBD-1.1/PBD/man/PBD-package.Rd | 10 +- PBD-1.1/PBD/man/pbd_sim.Rd | 22 +++- 10 files changed, 101 insertions(+), 164 deletions(-)
Title: Discovering Multiple, Statistically-Equivalent Signatures
Description: Feature selection methods for identifying minimal, statistically-equivalent and equally-predictive feature subsets. MXM stands for "Mens eX Machina", meaning "Mind from the Machine" in Latin.
Author: Ioannis Tsamardinos, Vincenzo Lagani, Giorgos Athineou, Michail Tsagris, Giorgos Borboudakis
Maintainer: Giorgos Athineou <athineou@ics.forth.gr>
Diff between MXM versions 0.4.3 dated 2015-07-28 and 0.5 dated 2015-09-29
DESCRIPTION | 17 +-- MD5 | 39 ++++--- NAMESPACE | 51 ++++++++-- R/SES.R | 248 ++++++++++++++++++++++++++++++------------------- R/censIndLR.R | 43 ++++---- R/gSquare.R | 17 +-- R/testIndBeta.R |only R/testIndFisher.R | 121 +++++++++++++---------- R/testIndLogistic.R | 157 +++++++++++++++++++------------ R/testIndNB.R |only R/testIndPois.R |only R/testIndRQ.R |only R/testIndReg.R |only man/MXM-package.Rd | 12 +- man/MXMCondIndTests.Rd |only man/SES.Rd | 17 ++- man/censIndLR.Rd | 13 +- man/cv.ses.Rd | 2 man/gSquare.Rd | 23 ++-- man/testIndBeta.Rd |only man/testIndFisher.Rd | 20 ++- man/testIndLogistic.Rd | 47 +++++---- man/testIndNB.Rd |only man/testIndPois.Rd |only man/testIndRQ.Rd |only man/testIndReg.Rd |only 26 files changed, 504 insertions(+), 323 deletions(-)
Title: Designing Multi-Arm Multi-Stage Studies
Description: Designing multi-arm multi-stage studies with normal endpoints and known variance.
Author: Thomas Jaki <jaki.thomas@gmail.com>, Dominic Magirr <d.magirr@gmail.com>, Philip Pallmann <p.pallmann@lancaster.ac.uk>
Maintainer: Thomas Jaki <jaki.thomas@gmail.com>
Diff between MAMS versions 0.5 dated 2015-06-24 and 0.6 dated 2015-09-29
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NAMESPACE | 5 +++++ R/generics.R | 25 ++++++++++++++----------- R/mams.sim.R | 4 +++- R/new.bounds.R | 37 ++++++++++++++++++++++++++++--------- R/step_down_mams.R | 2 +- inst/NEWS | 9 +++++++++ man/generic.Rd | 24 +++++++++++++----------- man/mams.Rd | 12 +++++------- man/mams.sim.Rd | 25 +++++++++++++------------ man/new.bounds.Rd | 18 +++++++++--------- man/step_down_mams.Rd | 27 +++++++++++++-------------- man/update_mams.Rd | 38 ++++++++++++++++++-------------------- 14 files changed, 148 insertions(+), 112 deletions(-)
Title: Calculation of Low Flow Statistics for Daily Stream Flow Data
Description: The "Manual on Low-flow Estimation and Prediction", published by the World Meteorological Organisation (WMO), gives a comprehensive summary on how to analyse stream flow data focusing on low-flows. This packages provides functions to compute the described statistics and produces plots similar to the ones in the manual.
Author: Daniel Koffler, Tobias Gauster and Gregor Laaha
Maintainer: Tobias Gauster <t.gauster@boku.ac.at>
Diff between lfstat versions 0.6.1 dated 2014-08-12 and 0.8.0 dated 2015-09-29
DESCRIPTION | 25 MD5 | 76 +- NAMESPACE | 130 +++- NEWS.md |only R/1NAs.R | 66 -- R/2processes.R | 305 +++++----- R/3lfindices.R | 1289 +++++++++++++++++++++++----------------------- R/5extreme.R | 733 +++++++++++++++++++++----- R/6streamdef.R | 306 ++++------ R/7multistation.R | 103 +-- R/hyear.R | 136 ++++ R/lfobj.R | 223 ++++--- R/methods.R | 88 +-- R/misc.R |only R/options.R | 34 - R/pooling.R |only R/readsheets.R | 163 ++--- README.md |only data/ngaruroro.rda |binary data/ray.rda |only man/BFI.Rd | 111 +-- man/as.xts.lfobj.Rd |only man/baseflow.Rd |only man/cdf_ev.Rd |only man/check_distribution.Rd |only man/createlfobj.Rd | 168 +++-- man/evfit.Rd |only man/evquantile.Rd |only man/find_droughts.Rd |only man/gringorten.Rd |only man/hyear_start.Rd |only man/ma.Rd |only man/ngaruroro.Rd | 39 - man/plot.deficit.Rd |only man/pool_ic.Rd |only man/rfa.Rd | 107 +-- man/rpline.Rd |only man/streamdef.Rd | 186 +++--- man/summary.deficit.Rd |only man/trace_value.Rd |only man/tyears.Rd | 181 +++--- man/tyearsS.Rd |only man/vary_threshold.Rd |only man/water_year.Rd |only tests |only 45 files changed, 2559 insertions(+), 1910 deletions(-)
Title: Kernel Factory: An Ensemble of Kernel Machines
Description: Binary classification based on an ensemble of kernel machines ("Ballings, M. and Van den Poel, D. (2013), Kernel Factory: An Ensemble of Kernel Machines. Expert Systems With Applications, 40(8), 2904-2913"). Kernel factory is an ensemble method where each base classifier (random forest) is fit on the kernel matrix of a subset of the training data.
Author: Michel Ballings, Dirk Van den Poel
Maintainer: Michel Ballings <Michel.Ballings@GMail.com>
Diff between kernelFactory versions 0.2.2 dated 2015-05-26 and 0.3.0 dated 2015-09-29
DESCRIPTION | 10 +++--- MD5 | 12 ++++---- NAMESPACE | 1 R/kernelFactory.R | 2 - R/predict.kernelFactory.R | 62 ++++++++++++++++++++++++++++++------------- inst/NEWS | 6 +++- man/predict.kernelFactory.Rd | 5 ++- 7 files changed, 66 insertions(+), 32 deletions(-)
Title: Examples of Neural Networks
Description: Implementations of several basic neural network concepts in R, as based on posts on \url{http://qua.st/}.
Author: Bastiaan Quast [aut, cre]
Maintainer: Bastiaan Quast <bquast@gmail.com>
Diff between learNN versions 0.1.0 dated 2015-09-08 and 0.2.0 dated 2015-09-29
DESCRIPTION | 6 - MD5 | 33 ++--- NAMESPACE | 19 +-- NEWS | 18 +-- R/learNN.R | 10 - R/learn_bp.R | 205 +++++++++++++++++------------------ R/learn_do.R | 179 +++++++++++++++++++++++------- R/learn_gd.R | 237 ++++++++++++++++++++--------------------- README.md | 144 ++++++++++++------------ man/learn_bp.Rd | 75 ++++++------ man/learn_bp11.Rd | 68 ++++++----- man/learn_do.Rd |only man/learn_do15.Rd | 96 ++++++++-------- man/learn_gd.Rd | 96 ++++++++-------- man/learn_gd13.Rd | 72 ++++++------ man/learnn.Rd | 22 +-- tests/testthat.R | 8 - tests/testthat/test_learn_bp.R | 44 +++---- 18 files changed, 725 insertions(+), 607 deletions(-)
Title: Tools for Working with ICD-9 Codes, and Finding Comorbidities
Description: Calculate comorbidities, Charlson scores, perform fast and accurate
validation, conversion, manipulation, filtering and comparison of ICD-9-CM
(clinical modification) codes. ICD-9 codes appear numeric but leading and
trailing zeroes, and both decimal and non-decimal "short" format codes
exist. The package enables a work flow from raw lists of ICD-9 codes from
hospital billing databases to comorbidities. ICD-9 to comorbidity mappings
from Quan (Deyo and Elixhauser versions), Elixhauser and AHRQ included. Any
other mapping of codes, such as ICD-10, to comorbidities can be used.
Author: Jack O. Wasey [aut, cre, cph],
William Murphy [ctb],
R Core Team [ctb, cph]
Maintainer: Jack O. Wasey <jack@jackwasey.com>
Diff between icd9 versions 1.2.2 dated 2015-09-08 and 1.3 dated 2015-09-29
icd9-1.2.2/icd9/configure.ac |only icd9-1.2.2/icd9/tools |only icd9-1.3/icd9/DESCRIPTION | 22 icd9-1.3/icd9/MD5 | 124 icd9-1.3/icd9/NAMESPACE | 2 icd9-1.3/icd9/R/RcppExports.R | 111 icd9-1.3/icd9/R/benchmark.R | 102 icd9-1.3/icd9/R/comorbid.R | 41 icd9-1.3/icd9/R/convert.R | 13 icd9-1.3/icd9/R/explain.R | 6 icd9-1.3/icd9/R/score.R | 35 icd9-1.3/icd9/R/util.R | 68 icd9-1.3/icd9/R/zzz.R | 38 icd9-1.3/icd9/README.md | 33 icd9-1.3/icd9/cleanup | 2 icd9-1.3/icd9/configure | 3425 +++++++++++++++----------- icd9-1.3/icd9/inst/doc/introduction.R | 9 icd9-1.3/icd9/inst/doc/introduction.Rmd | 24 icd9-1.3/icd9/inst/doc/introduction.html | 34 icd9-1.3/icd9/inst/include/icd9_RcppExports.h | 455 ++- icd9-1.3/icd9/man/convert.Rd | 9 icd9-1.3/icd9/man/factor_.Rd |only icd9-1.3/icd9/man/fastIntToString.Rd |only icd9-1.3/icd9/man/icd9ChaptersToMap.Rd | 5 icd9-1.3/icd9/man/icd9Charlson.Rd | 26 icd9-1.3/icd9/man/icd9Comorbid.Rd | 19 icd9-1.3/icd9/man/icd9DropLeadingZeroes.Rd | 5 icd9-1.3/icd9/man/icd9GetMajor.Rd | 7 icd9-1.3/icd9/man/icd9LongToWide.Rd | 5 icd9-1.3/icd9/man/icd9RandomShort.Rd |only icd9-1.3/icd9/man/icd9RandomShortE.Rd |only icd9-1.3/icd9/man/icd9RandomShortN.Rd |only icd9-1.3/icd9/man/icd9RandomShortV.Rd |only icd9-1.3/icd9/man/icd9ShortToDecimal.Rd | 4 icd9-1.3/icd9/man/icd9WideToLong.Rd | 5 icd9-1.3/icd9/src/Makevars.in | 11 icd9-1.3/icd9/src/RcppExports.cpp | 670 ++++- icd9-1.3/icd9/src/comorbid.cpp | 150 - icd9-1.3/icd9/src/comorbidCommon.cpp | 205 - icd9-1.3/icd9/src/comorbidSetup.cpp | 32 icd9-1.3/icd9/src/config.h.in | 15 icd9-1.3/icd9/src/config.h.win | 40 icd9-1.3/icd9/src/convert.cpp | 250 + icd9-1.3/icd9/src/convert.h | 21 icd9-1.3/icd9/src/cutil.c | 12 icd9-1.3/icd9/src/cutil.h | 12 icd9-1.3/icd9/src/is.cpp | 1 icd9-1.3/icd9/src/local.h | 69 icd9-1.3/icd9/src/longToWide.cpp | 38 icd9-1.3/icd9/src/manip.cpp | 70 icd9-1.3/icd9/src/manip.h | 3 icd9-1.3/icd9/src/ranges.cpp | 92 icd9-1.3/icd9/src/ranges.h | 2 icd9-1.3/icd9/src/util.cpp | 256 + icd9-1.3/icd9/src/util.h | 20 icd9-1.3/icd9/tests/testthat/test-billable.R | 1 icd9-1.3/icd9/tests/testthat/test-convert.R | 7 icd9-1.3/icd9/tests/testthat/test-openmp.R |only icd9-1.3/icd9/tests/testthat/test-score.R | 68 icd9-1.3/icd9/vignettes/introduction.Rmd | 24 60 files changed, 4490 insertions(+), 2208 deletions(-)
Title: Dynamical Assembly of Islands by Speciation, Immigration and
Extinction
Description: Simulates and computes the (maximum) likelihood of a dynamical model of island biota assembly through speciation, immigration and extinction. See Valente et al. 2015. Ecology Letters 18: 844-852.
Author: Rampal S. Etienne, Luis M. Valente, Albert B. Phillimore & Bart Haegenan
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>
Diff between DAISIE versions 1.0.1 dated 2015-06-03 and 1.0.2 dated 2015-09-29
DESCRIPTION | 15 +++++----- MD5 | 48 +++++++++++++++++------------------ NAMESPACE | 6 +++- R/DAISIE_tutorial.R | 7 ++--- data/Galapagos_datalist.RData |binary data/Galapagos_datalist_2types.RData |binary data/Galapagos_datatable.RData |binary data/islands_10reps_RAW.RData |binary data/islands_1type_1000reps.RData |binary data/islands_2types_1000reps.RData |binary man/DAISIE-package.Rd | 8 ++--- man/DAISIE_ExpEIN.Rd | 3 -- man/DAISIE_ML.Rd | 3 -- man/DAISIE_dataprep.Rd | 3 -- man/DAISIE_format_sim.Rd | 3 -- man/DAISIE_loglik_all.Rd | 5 +-- man/DAISIE_plot_sims.Rd | 3 -- man/DAISIE_sim.Rd | 5 +-- man/DAISIE_tutorial.Rd | 8 +---- man/Galapagos_datalist.Rd | 3 -- man/Galapagos_datalist_2types.Rd | 3 -- man/Galapagos_datatable.Rd | 3 -- man/islands_10reps_RAW.Rd | 3 -- man/islands_1type_1000reps.Rd | 3 -- man/islands_2types_1000reps.Rd | 3 -- 25 files changed, 62 insertions(+), 73 deletions(-)
Title: A Toolkit for Recursive Partytioning
Description: A toolkit with infrastructure for representing, summarizing, and
visualizing tree-structured regression and classification models. This
unified infrastructure can be used for reading/coercing tree models from
different sources (rpart, RWeka, PMML) yielding objects that share
functionality for print/plot/predict methods. Furthermore, new and improved
reimplementations of conditional inference trees (ctree) and model-based
recursive partitioning (mob) from the party package are provided based
on the new infrastructure.
Author: Torsten Hothorn [aut, cre],
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between partykit versions 1.0-3 dated 2015-08-14 and 1.0-4 dated 2015-09-29
partykit-1.0-3/partykit/inst/tmp |only partykit-1.0-4/partykit/DESCRIPTION | 8 +-- partykit-1.0-4/partykit/MD5 | 41 +++++++-------- partykit-1.0-4/partykit/NAMESPACE | 1 partykit-1.0-4/partykit/R/glmtree.R | 1 partykit-1.0-4/partykit/R/lmtree.R | 1 partykit-1.0-4/partykit/R/modelparty.R | 4 + partykit-1.0-4/partykit/R/party.R | 4 + partykit-1.0-4/partykit/R/plot.R | 64 +++++++++++++++--------- partykit-1.0-4/partykit/R/simpleparty.R | 12 +++- partykit-1.0-4/partykit/data/HuntingSpiders.rda |binary partykit-1.0-4/partykit/data/WeatherPlay.rda |binary partykit-1.0-4/partykit/inst/NEWS.Rd | 18 ++++++ partykit-1.0-4/partykit/inst/doc/constparty.pdf |binary partykit-1.0-4/partykit/inst/doc/ctree.pdf |binary partykit-1.0-4/partykit/inst/doc/mob.Rnw | 12 ++-- partykit-1.0-4/partykit/inst/doc/mob.pdf |binary partykit-1.0-4/partykit/inst/doc/partykit.pdf |binary partykit-1.0-4/partykit/man/panelfunctions.Rd | 6 +- partykit-1.0-4/partykit/man/party-methods.Rd | 1 partykit-1.0-4/partykit/vignettes/mob.Rnw | 12 ++-- partykit-1.0-4/partykit/vignettes/party.bib | 42 +++++++++------ 22 files changed, 143 insertions(+), 84 deletions(-)
Title: Tools for Reading and Handling Spatial Objects
Description: Set of tools for manipulating and reading geographic data, in particular ESRI shapefiles; C code used from shapelib. It includes binary access to GSHHG shoreline files. The package also provides interface wrappers for exchanging spatial objects with packages such as PBSmapping, spatstat, maps, RArcInfo, Stata tmap, WinBUGS, Mondrian, and others.
Author: Roger Bivand [cre, aut],
Nicholas Lewin-Koh [aut],
Edzer Pebesma [ctb],
Eric Archer [ctb],
Adrian Baddeley [ctb],
Nick Bearman [ctb],
Hans-Jörg Bibiko [ctb],
Steven Brey [ctb],
Jonathan Callahan [ctb],
German Carrillo [ctb],
Stéphane Dray [ctb],
David Forrest [ctb],
Michael Friendly [ctb],
Patrick Giraudoux [ctb],
Duncan Golicher [ctb],
Virgilio Gómez Rubio [ctb],
Patrick Hausmann [ctb],
Karl Ove Hufthammer [ctb],
Thomas Jagger [ctb],
Sebastian Luque [ctb],
Don MacQueen [ctb],
Andrew Niccolai [ctb],
Edzer Pebesma [ctb],
Oscar Perpiñán Lamigueiro [ctb],
Tom Short [ctb],
Greg Snow [ctb],
Ben Stabler [ctb],
Murray Stokely [ctb],
Rolf Turner [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between maptools versions 0.8-36 dated 2015-04-24 and 0.8-37 dated 2015-09-29
ChangeLog | 34 +++++++++++ DESCRIPTION | 15 ++-- MD5 | 39 ++++++------ NAMESPACE | 9 +- R/colslegs.R | 45 +++++++++++--- R/nowrapRecenter.R | 124 ++++++++++++++++++++++++++++++++++++++--- R/sp_spat1.R | 28 +++++++++ R/spmaps.R | 30 ++++++++- build/vignette.rds |binary inst/ChangeLog | 34 +++++++++++ inst/doc/combine_maptools.R | 2 inst/doc/combine_maptools.Rnw | 4 - inst/doc/combine_maptools.pdf |binary man/as.ppp.Rd | 12 +++ man/gzAzimuth.Rd | 2 man/leglabs.Rd | 14 +++- man/map2SpatialPolygons.Rd | 11 +++ man/nowrapRecenter.Rd | 10 +-- man/nowrapSpatialLines.Rd |only man/sp2Mondrian.Rd | 2 vignettes/combine_maptools.Rnw | 4 - 21 files changed, 354 insertions(+), 65 deletions(-)