Title: Tools for Reading SDMX Data and Metadata
Diff between rsdmx versions 0.4-3 dated 2014-12-03 and 0.4-4 dated 2015-01-16
Description: rsdmx provides a set of classes and methods to read data and metadata documents
exchanged through the Statistical Data and Metadata Exchange (SDMX) framework. The
package currently focuses on the SDMX XML standard format (SDMX-ML).
Author: Emmanuel Blondel [aut, cre],
Matthieu Stigler [ctb]
Maintainer: Emmanuel Blondel
DESCRIPTION | 31 ++++++------
MD5 | 25 +++++-----
NAMESPACE | 3 +
R/Class-SDMXHeader.R | 36 +++++++++++---
R/Class-SDMXType.R | 11 ++--
R/Class-SDMXUtilityData.R |only
R/SDMXCompactData-methods.R | 58 +++++++++++++++--------
R/SDMXHeader-methods.R | 105 +++++++++++++++++++++++++------------------
R/SDMXMessageGroup-methods.R | 8 ---
R/SDMXUtilityData-methods.R |only
R/readSDMX.R | 39 ++++++++-------
README.md | 8 ++-
man/SDMXType-class.Rd | 4 +
man/SDMXUtilityData-class.Rd |only
man/rsdmx-package.Rd | 4 -
15 files changed, 199 insertions(+), 133 deletions(-)
Title: Parameter estimation for the averaging model of Information
Integration Theory
Diff between rAverage versions 0.4-10 dated 2014-11-11 and 0.4-13 dated 2015-01-16
Description: Parameter estimation for averaging models of Anderson's Information Integration Theory
Author: Giulio Vidotto
Maintainer: Davide Massidda
DESCRIPTION | 12 +++++-----
MD5 | 18 +++++++--------
R/fun.rav.R | 57 +++++++++++++++---------------------------------
R/rAverage.R | 5 ++++
R/rav.R | 8 ------
man/outlier.replace.Rd | 6 +++--
man/rAverage-package.Rd | 6 ++---
man/rav.Rd | 6 ++---
src/combinations.c | 20 ++++++++--------
src/rAverage.h | 2 -
10 files changed, 60 insertions(+), 80 deletions(-)
Title: Bayesian Fertility Projection
Diff between bayesTFR versions 4.0-11 dated 2014-11-21 and 4.1-2 dated 2015-01-16
Description: Making probabilistic projections of total fertility rate for all countries of the world, using a Bayesian hierarchical model.
Author: Hana Sevcikova (hanas@uw.edu), Leontine Alkema (alkema@nus.edu.sg), Adrian Raftery (raftery@uw.edu) with code contribution from Bailey Fosdick (bfosdick@uw.edu) and Patrick Gerland (gerland@un.org)
Maintainer: Hana Sevcikova
ChangeLog | 13 +++++++++----
DESCRIPTION | 8 ++++----
MD5 | 18 +++++++++---------
R/mcmc_ini.R | 13 ++++++-------
R/run_mcmc.R | 7 ++++---
R/wpp_data.R | 28 ++++++++++++++++++++++------
man/bayesTFR-package.Rd | 4 ++--
man/run-mcmc.Rd | 7 +++++--
man/run.tfr.mcmc.extra.Rd | 6 ++++--
tests/test_functions.R | 24 +++++++++++++++++++++---
10 files changed, 86 insertions(+), 42 deletions(-)
Title: Core Methods and Classes Used by aroma.* Packages Part of The
Aroma Framework
Diff between aroma.core versions 2.12.1 dated 2014-03-08 and 2.13.0 dated 2015-01-16
Description: This package contains core methods and classes used by
higher-level aroma.* packages part of the Aroma Project, e.g.
aroma.affymetrix and aroma.cn. Its API is mostly of interest
to developers and is rarely used by end users directly.
Author: Henrik Bengtsson [aut, cre, cph],
Mark Robinson [ctb],
Ken Simpson [ctb]
Maintainer: Henrik Bengtsson
aroma.core-2.12.1/aroma.core/inst/annotationData/genomes/Human/Human,chromosomes,20100928.txt |only
aroma.core-2.12.1/aroma.core/inst/annotationData/genomes/Human/Human,chromosomes,max,20090503.txt |only
aroma.core-2.13.0/aroma.core/DESCRIPTION | 33 -
aroma.core-2.13.0/aroma.core/MD5 | 151 +++----
aroma.core-2.13.0/aroma.core/NAMESPACE | 28 -
aroma.core-2.13.0/aroma.core/NEWS | 58 ++
aroma.core-2.13.0/aroma.core/R/009.setup.R | 36 +
aroma.core-2.13.0/aroma.core/R/999.AromaCore.R | 10
aroma.core-2.13.0/aroma.core/R/AromaCellCpgFile.R | 50 --
aroma.core-2.13.0/aroma.core/R/AromaCellPositionFile.R | 64 ---
aroma.core-2.13.0/aroma.core/R/AromaCellTabularBinaryFile.R | 64 ++-
aroma.core-2.13.0/aroma.core/R/AromaMicroarrayDataFile.ATTRS.R | 14
aroma.core-2.13.0/aroma.core/R/AromaMicroarrayDataSet.ATTRS.R | 12
aroma.core-2.13.0/aroma.core/R/AromaMicroarrayDataSetTuple.R | 30 -
aroma.core-2.13.0/aroma.core/R/AromaMicroarrayTabularBinaryFile.R | 43 --
aroma.core-2.13.0/aroma.core/R/AromaPlatform.R | 38 +
aroma.core-2.13.0/aroma.core/R/AromaPlatformInterface.R | 213 +++++++++-
aroma.core-2.13.0/aroma.core/R/AromaTabularBinaryFile.R | 12
aroma.core-2.13.0/aroma.core/R/AromaTabularBinarySet.ATTRS.R | 16
aroma.core-2.13.0/aroma.core/R/AromaUnitCallSet.R | 12
aroma.core-2.13.0/aroma.core/R/AromaUnitFracBCnBinarySet.exportFracBDiffSet.R | 4
aroma.core-2.13.0/aroma.core/R/AromaUnitGenotypeCallSet.R | 18
aroma.core-2.13.0/aroma.core/R/AromaUnitPscnBinarySet.R | 4
aroma.core-2.13.0/aroma.core/R/AromaUnitSignalBinaryFile.R | 18
aroma.core-2.13.0/aroma.core/R/AromaUnitSignalBinaryFile.writeDataFrame.R | 8
aroma.core-2.13.0/aroma.core/R/AromaUnitSignalBinarySet.R | 15
aroma.core-2.13.0/aroma.core/R/AromaUnitSignalBinarySet.writeDataFrame.R | 2
aroma.core-2.13.0/aroma.core/R/AromaUnitTotalCnBinaryFile.extractPSCNArray.R | 8
aroma.core-2.13.0/aroma.core/R/AromaUnitTotalCnBinarySet.R | 4
aroma.core-2.13.0/aroma.core/R/AromaUnitTotalCnBinarySet.exportAromaUnitPscnBinarySet.R | 4
aroma.core-2.13.0/aroma.core/R/AromaUnitTotalCnBinarySet.exportTotalCnRatioSet.R | 4
aroma.core-2.13.0/aroma.core/R/CbsModel.R | 21
aroma.core-2.13.0/aroma.core/R/ChromosomeExplorer.R | 4
aroma.core-2.13.0/aroma.core/R/CopyNumberChromosomalModel.R | 11
aroma.core-2.13.0/aroma.core/R/CopyNumberRegions.R | 2
aroma.core-2.13.0/aroma.core/R/CopyNumberSegmentationModel.R | 2
aroma.core-2.13.0/aroma.core/R/Explorer.R | 32 +
aroma.core-2.13.0/aroma.core/R/HaarSegModel.R | 21
aroma.core-2.13.0/aroma.core/R/MPCBS.EXTS.R | 5
aroma.core-2.13.0/aroma.core/R/NonPairedPSCNData.R | 10
aroma.core-2.13.0/aroma.core/R/RasterImage.R | 4
aroma.core-2.13.0/aroma.core/R/SampleAnnotationFile.R | 2
aroma.core-2.13.0/aroma.core/R/SampleAnnotationSet.R | 18
aroma.core-2.13.0/aroma.core/R/SegmentationDataSet.R | 8
aroma.core-2.13.0/aroma.core/R/fitGenotypeCone.matrix.R | 6
aroma.core-2.13.0/aroma.core/R/fitMultiDimensionalCone.matrix.R | 8
aroma.core-2.13.0/aroma.core/R/fitWHRCModel.matrix.R | 13
aroma.core-2.13.0/aroma.core/R/getCommonListElements.R | 4
aroma.core-2.13.0/aroma.core/R/norm2d.matrix.R | 10
aroma.core-2.13.0/aroma.core/R/stringTree.R | 8
aroma.core-2.13.0/aroma.core/R/zzz.R | 2
aroma.core-2.13.0/aroma.core/inst/testScripts/fileFormats/acf/test20090107,AromaUnitGenotypeCallSet.R | 4
aroma.core-2.13.0/aroma.core/inst/testScripts/fileFormats/acf/test20090518,acf.R | 11
aroma.core-2.13.0/aroma.core/man/AromaCellTabularBinaryFile.Rd | 41 -
aroma.core-2.13.0/aroma.core/man/AromaMicroarrayDataSet.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaMicroarrayDataSetTuple.Rd | 28 -
aroma.core-2.13.0/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaPlatform.Rd | 39 +
aroma.core-2.13.0/aroma.core/man/AromaPlatformInterface.Rd |only
aroma.core-2.13.0/aroma.core/man/AromaTabularBinarySet.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaUnitCallFile.Rd | 4
aroma.core-2.13.0/aroma.core/man/AromaUnitCallSet.Rd | 32 -
aroma.core-2.13.0/aroma.core/man/AromaUnitFracBCnBinaryFile.Rd | 4
aroma.core-2.13.0/aroma.core/man/AromaUnitFracBCnBinarySet.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaUnitGenotypeCallFile.Rd | 4
aroma.core-2.13.0/aroma.core/man/AromaUnitGenotypeCallSet.Rd | 32 -
aroma.core-2.13.0/aroma.core/man/AromaUnitPscnBinaryFile.Rd | 4
aroma.core-2.13.0/aroma.core/man/AromaUnitPscnBinarySet.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaUnitSignalBinaryFile.Rd | 3
aroma.core-2.13.0/aroma.core/man/AromaUnitSignalBinarySet.Rd | 32 -
aroma.core-2.13.0/aroma.core/man/AromaUnitTabularBinaryFile.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaUnitTotalCnBinaryFile.Rd | 4
aroma.core-2.13.0/aroma.core/man/AromaUnitTotalCnBinarySet.Rd | 2
aroma.core-2.13.0/aroma.core/man/AromaUnitTypesFile.Rd | 4
aroma.core-2.13.0/aroma.core/man/Non-documented_objects.Rd | 15
aroma.core-2.13.0/aroma.core/man/getAromaPlatform.AromaPlatformInterface.Rd |only
aroma.core-2.13.0/aroma.core/man/getChipType.AromaPlatformInterface.Rd |only
aroma.core-2.13.0/aroma.core/man/getPlatform.AromaPlatformInterface.Rd |only
aroma.core-2.13.0/aroma.core/man/getUnitAnnotationDataFile.AromaPlatformInterface.Rd |only
aroma.core-2.13.0/aroma.core/man/isCompatibleWith.AromaPlatformInterface.Rd |only
aroma.core-2.13.0/aroma.core/tests/aromaSettings.R |only
81 files changed, 849 insertions(+), 590 deletions(-)
Title: Biplot representations of ordinal variables
Diff between OrdinalLogisticBiplot versions 0.3 dated 2014-05-02 and 0.4 dated 2015-01-16
More information about OrdinalLogisticBiplot at CRAN
Description: Analysis of a matrix of polytomous items using Ordinal Logistic Biplots (OLB)
The OLB procedure extends the binary logistic biplot to ordinal (polytomous) data.
The individuals are represented as points on a plane and the variables are represented
as lines rather than vectors as in a classical or binary biplot, specifying the points
for each of the categories of the variable.
The set of prediction regions is established by stripes perpendicular to the line
between the category points, in such a way that the prediction for each individual is given
by its projection into the line of the variable.
Author: Julio Cesar Hernandez Sanchez, Jose Luis Vicente-Villardon
Maintainer: Julio Cesar Hernandez Sanchez
DESCRIPTION | 8 -
MD5 | 40 +++----
R/BiplotDensity.r | 5
R/CheckDataSet.r | 14 +-
R/OrdinalLogBiplotEM.r | 27 ++--
R/OrdinalLogisticBiplot.r | 190 ++++++++++++++++------------------
R/PlotClusters.r | 3
R/plotOrdinalFittedVariable.r | 4
R/plotOrdinalVariable.r | 1
R/pordlogist.r | 193 +++++++++++++++++++----------------
man/BiplotDensity.Rd | 7 -
man/CheckDataSet.Rd | 6 -
man/LevelSatPhd.Rd | 2
man/OrdinalLogBiplotEM.Rd | 8 -
man/OrdinalLogisticBiplot-package.Rd | 4
man/OrdinalLogisticBiplot.Rd | 10 -
man/plot.ordinal.logistic.biplot.Rd | 4
man/plotOrdinalFittedVariable.Rd | 2
man/plotOrdinalVariable.Rd | 2
man/pordlogist.Rd | 2
man/summary.pordlogist.Rd | 2
21 files changed, 277 insertions(+), 257 deletions(-)
Permanent link
Title: Bringing to light significant Columns correlated with Organism
Labels
Diff between bcool versions 1.1 dated 2014-02-21 and 1.2 dated 2015-01-16
Description: A set of analytical tools that helps searching for sites in an alignment, which might be associated with a phenotype label for the organism (e.g. changes in columns that can be associated with the pathogenicity character of an organism)
Author: Hugo Naya, Lucia Spangenberg
Maintainer: Hugo Naya
DESCRIPTION | 12
MD5 | 24 -
NAMESPACE | 2
R/bcool.R | 18 -
build/vignette.rds |binary
inst/doc/bcool.R | 678 ++++++++++++++++++++++++++++++++++--------
inst/doc/bcool.Snw | 20 -
inst/doc/bcool.pdf |binary
man/MCMCglmm.APPT.list.Rd | 3
man/RGBcolor.APPT.list.Rd | 3
man/bootMCMCglmm.APPT.list.Rd | 3
man/summaryAPPT.list.Rd | 1
vignettes/bcool.Snw | 20 -
13 files changed, 622 insertions(+), 162 deletions(-)
Title: An Interface to the NOAA Operational Model Archive and
Distribution System
Diff between rNOMADS versions 2.1.1 dated 2015-01-03 and 2.1.2 dated 2015-01-16
Description: An interface to the National Oceanic and Atmospheric Administration's Operational Model Archive and Distribution System (NOMADS) that allows R users to quickly and efficiently download global and regional weather model data for processing. rNOMADS currently supports a variety of models ranging from global weather data to an altitude of 40 km, to high resolution regional weather models, to wave and sea ice models. It can also retrieve archived NOMADS models. rNOMADS can retrieve binary data in grib format as well as import ascii data directly into R by interfacing with the GrADS-DODS system.
Author: Daniel C. Bowman [aut, cre]
Maintainer: Daniel C. Bowman
rNOMADS-2.1.1/rNOMADS/man/GetClosestGFSForecasts.Rd |only
rNOMADS-2.1.2/rNOMADS/DESCRIPTION | 8 ++--
rNOMADS-2.1.2/rNOMADS/MD5 | 38 ++++++++++----------
rNOMADS-2.1.2/rNOMADS/NEWS | 3 +
rNOMADS-2.1.2/rNOMADS/R/RNomadsTools.R | 11 +++--
rNOMADS-2.1.2/rNOMADS/man/BuildProfile.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/CrawlModels.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/DODSGrab.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/GetClosestForecasts.Rd |only
rNOMADS-2.1.2/rNOMADS/man/GetDODSDates.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/GetDODSModelRunInfo.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/GetDODSModelRuns.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/GribGrab.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/GribInfo.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/ModelGrid.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/ParseModelPage.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/PlotWindProfile.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/RTModelProfile.Rd | 4 +-
rNOMADS-2.1.2/rNOMADS/man/ReadGrib.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/WebCrawler.Rd | 2 -
rNOMADS-2.1.2/rNOMADS/man/rNOMADS-package.Rd | 2 -
21 files changed, 48 insertions(+), 44 deletions(-)
Title: Paleontological and Phylogenetic Analyses of Evolution
Diff between paleotree versions 2.2 dated 2014-09-18 and 2.3 dated 2015-01-16
Description: Analyzes, time-scales and simulates phylogenies of extinct/fossil
lineages, along with calculation of diversity curves. Also fits likelihood
models to estimate sampling rates from stratigraphic ranges.
Author: David W. Bapst
Maintainer: David W. Bapst
CHANGELOG | 10 +++
DESCRIPTION | 11 ++-
MD5 | 120 +++++++++++++++++++++--------------------
NAMESPACE | 4 +
R/cal3TimePaleoPhy.R | 8 ++
R/dateNodes.R | 2
R/degradeTree.R | 8 +-
R/durationFreq.R | 2
R/graptDisparity.R | 11 ++-
R/minBranchLength.R |only
R/modifyTerminalBranches.R | 121 +++++++++++++++++++++++++++++++++++++-----
R/perCapitaRates.R | 2
R/timePaleoPhy.R | 33 +++--------
R/timeSliceTree.R | 12 +++-
README | 25 ++++++++
man/DiversityCurves.Rd | 3 -
man/SamplingConv.Rd | 3 -
man/binTimeData.Rd | 3 -
man/branchClasses.Rd | 3 -
man/cal3TimePaleoPhy.Rd | 3 -
man/cladogeneticTraitCont.Rd | 3 -
man/compareTimescaling.Rd | 3 -
man/constrainParPaleo.Rd | 3 -
man/dateNodes.Rd | 3 -
man/degradeTree.Rd | 9 +--
man/depthRainbow.Rd | 3 -
man/durationFreq.Rd | 4 -
man/expandTaxonTree.Rd | 3 -
man/footeValues.Rd | 3 -
man/freqRat.Rd | 3 -
man/getSampProbDisc.Rd | 3 -
man/getSampRateCont.Rd | 3 -
man/graptDisparity.Rd | 14 ++--
man/horizonSampRate.Rd | 3 -
man/inverseSurv.Rd | 3 -
man/minBranchLength.Rd |only
man/modelMethods.Rd | 3 -
man/modifyTerminalBranches.Rd | 56 +++++++++++++++++--
man/multiDiv.Rd | 3 -
man/nearestNeighborDist.Rd | 3 -
man/optimPaleo.Rd | 3 -
man/paleotree-package.Rd | 3 -
man/perCapitaRates.Rd | 5 +
man/perfectParsCharTree.Rd | 3 -
man/plotTraitgram.Rd | 3 -
man/pqr2Ps.Rd | 3 -
man/probAnc.Rd | 3 -
man/retiolitinae.Rd | 3 -
man/reverseList.Rd | 3 -
man/rootSplit.Rd | 3 -
man/sampleRanges.Rd | 3 -
man/seqTimeList.Rd | 3 -
man/simFossilTaxa.Rd | 3 -
man/simFossilTaxa_SRCond.Rd | 3 -
man/simPaleoTrees.Rd | 3 -
man/taxa2cladogram.Rd | 3 -
man/taxa2phylo.Rd | 3 -
man/termTaxa.Rd | 3 -
man/timeLadderTree.Rd | 3 -
man/timePaleoPhy.Rd | 3 -
man/timeSliceTree.Rd | 5 +
man/unitLengthTree.Rd | 3 -
62 files changed, 401 insertions(+), 181 deletions(-)
Title: Maximum Likelihood Inference for the Pearson VII Distribution
with Shape Parameter 3/2
Diff between pearson7 versions 1.0 dated 2013-02-14 and 1.0-1 dated 2015-01-16
Description: pearson7 supports maximum likelihood inference for the Pearson VII
distribution with shape parameter 3/2 and free location and scale
parameters. This distribution is relevant when estimating the velocity of
processive motor proteins with random detachment.
Author: John Hughes
Maintainer: John Hughes
DESCRIPTION | 18 +++++++++---------
MD5 | 6 +++---
R/zzz.R | 5 ++---
inst/CITATION | 5 ++---
4 files changed, 16 insertions(+), 18 deletions(-)
Title: Fitting the centered autologistic and sparse spatial generalized
linear mixed models for areal data
Diff between ngspatial versions 1.0-4 dated 2014-09-09 and 1.0-5 dated 2015-01-16
Description: ngspatial provides tools for analyzing spatial data, especially
non-Gaussian areal data. The current version supports the sparse spatial
generalized linear mixed model of Hughes and Haran (2013) and the centered
autologistic model of Caragea and Kaiser (2009).
Author: John Hughes
Maintainer: John Hughes
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/zzz.R | 4 ++--
inst/CITATION | 5 ++---
4 files changed, 11 insertions(+), 12 deletions(-)
Title: Fisher-Wright Population Simulation
Diff between fwsim versions 0.3.2 dated 2014-08-27 and 0.3.3 dated 2015-01-16
Description: Simulates a population under the Fisher-Wright model (fixed or stochastic population size) with a one-step neutral mutation process (stepwise mutation model, logistic mutation model and exponential mutation model supported). The stochastic population sizes are random Poisson distributed and different kinds of population growth are supported. For the stepwise mutation model, it is possible to specify locus and direction specific mutation rate (in terms of upwards and downwards mutation rate). Intermediate generations can be saved in order to study e.g. drift.
Author: Mikkel Meyer Andersen and Poul Svante Eriksen
Maintainer: Mikkel Meyer Andersen
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
NEWS | 3 +++
src/fwpopsim_fixed.cpp | 6 +++---
4 files changed, 13 insertions(+), 10 deletions(-)
Title: Discrete Laplace mixture inference using the EM algorithm
Diff between disclapmix versions 1.5 dated 2014-06-14 and 1.6 dated 2015-01-16
Description: disclapmix makes inference in a mixture of Discrete Laplace distributions using the EM algorithm. This can e.g. be used for modelling the distribution of Y chromosomal haplotypes as described in [1, 2] (refer to the URL section).
Author: Mikkel Meyer Andersen and Poul Svante Eriksen
Maintainer: Mikkel Meyer Andersen
DESCRIPTION | 10 +++++-----
MD5 | 8 ++++----
NEWS | 6 ++++++
R/helper.R | 32 +++++++++++++++++---------------
man/plot.disclapmixfit.Rd | 3 ++-
5 files changed, 34 insertions(+), 25 deletions(-)
Title: Consistent Batch Means Estimation of Monte Carlo Standard Errors
Diff between batchmeans versions 1.0-1 dated 2012-06-20 and 1.0-2 dated 2015-01-16
Description: batchmeans provides consistent batch means estimation of Monte
Carlo standard errors.
Author: Murali Haran
Maintainer: John Hughes
COPYING | 2 +-
DESCRIPTION | 18 +++++++++---------
MD5 | 16 ++++++++--------
R/batchmeans.R | 6 +++---
R/zzz.R | 10 +++++-----
inst/CITATION | 5 ++---
man/bm.Rd | 11 ++++++-----
man/bmmat.Rd | 6 +++---
man/estvssamp.Rd | 2 +-
9 files changed, 38 insertions(+), 38 deletions(-)
Title: Spatial Dependence: Weighting Schemes, Statistics and Models
Diff between spdep versions 0.5-82 dated 2015-01-07 and 0.5-83 dated 2015-01-16
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by distance and
tessellations, for summarizing these objects, and for permitting their
use in spatial data analysis, including regional aggregation by minimum
spanning tree; a collection of tests for spatial autocorrelation,
including global Moran's I, APLE, Geary's C, Hubert/Mantel general cross
product statistic, Empirical Bayes estimates and Assunção/Reis Index,
Getis/Ord G and multicoloured join count statistics, local Moran's I
and Getis/Ord G, saddlepoint approximations and exact tests for global
and local Moran's I; and functions for estimating spatial simultaneous
autoregressive (SAR) lag and error models, impact measures for lag
models, weighted and unweighted SAR and CAR spatial regression models,
semi-parametric and Moran eigenvector spatial filtering, GM SAR error
models, and generalized spatial two stage least squares models.
Author: Roger Bivand [cre, aut],
Micah Altman [ctb],
Luc Anselin [ctb],
Renato Assunção [ctb],
Olaf Berke [ctb],
Andrew Bernat [ctb],
Guillaume Blanchet [ctb],
Eric Blankmeyer [ctb],
Marilia Carvalho [ctb],
Bjarke Christensen [ctb],
Yongwan Chun [ctb],
Carsten Dormann [ctb],
Stéphane Dray [ctb],
Virgilio Gómez-Rubio [ctb],
Rein Halbersma [ctb],
Elias Krainski [ctb],
Pierre Legendre [ctb],
Nicholas Lewin-Koh [ctb],
Hongfei Li [ctb],
Jielai Ma [ctb],
Giovanni Millo [ctb],
Werner Mueller [ctb],
Hisaji Ono [ctb],
Pedro Peres-Neto [ctb],
Gianfranco Piras [ctb],
Markus Reder [ctb],
Michael Tiefelsdorf [ctb],
Danlin Yu [ctb]
Maintainer: Roger Bivand
ChangeLog | 14 ++++++++++++++
DESCRIPTION | 8 ++++----
MD5 | 39 ++++++++++++++++++++-------------------
R/AAA.R | 3 ++-
R/spChkOption.R | 13 ++++++++++++-
R/utils.R | 26 ++++++++++++++++++++------
inst/CITATION |only
inst/ChangeLog | 14 ++++++++++++++
inst/doc/CO69.pdf |binary
inst/doc/SpatialFiltering.pdf |binary
inst/doc/nb.pdf |binary
inst/doc/sids.pdf |binary
man/GMerrorsar.Rd | 5 ++++-
man/do_ldet.Rd | 5 ++++-
man/errorsarlm.Rd | 7 ++++++-
man/gstsls.Rd | 5 ++++-
man/impacts.sarlm.Rd | 5 ++++-
man/lagsarlm.Rd | 8 +++++++-
man/sacsarlm.Rd | 7 ++++++-
man/set.spChkOption.Rd | 4 ++++
man/stsls.Rd | 5 ++++-
21 files changed, 129 insertions(+), 39 deletions(-)
Title: R interface to REDCap
Diff between redcapAPI versions 1.1 dated 2014-11-25 and 1.2 dated 2015-01-16
Description: Access data stored in REDCap databases using the Application
Programming Interface (API). REDCap (Research Electronic Data CAPture) is
a web application for building and managing online surveys and databases
developed at Vanderbilt University. The API allows users to access data
and project meta data (such as the data dictionary) from the web
programmatically. The redcapAPI package facilitates the process of
accessing data with options to prepare an analysis-ready data set
consistent with the definitions in a database's data dictionary.
Author: Benjamin Nutter. Initiated by Jeffrey Horner and Will Gray with
contributions from Jeremy Stephens, and Will Beasley
Maintainer: Benjamin Nutter
redcapAPI-1.1/redcapAPI/man/queryRecords.Rd |only
redcapAPI-1.1/redcapAPI/man/redcapAPI-package.Rd |only
redcapAPI-1.2/redcapAPI/DESCRIPTION | 24 +
redcapAPI-1.2/redcapAPI/MD5 | 98 +++----
redcapAPI-1.2/redcapAPI/NAMESPACE | 104 +++----
redcapAPI-1.2/redcapAPI/NEWS | 12
redcapAPI-1.2/redcapAPI/R/allocationTable.R |only
redcapAPI-1.2/redcapAPI/R/allocationTable_offline.R |only
redcapAPI-1.2/redcapAPI/R/apiCall.R | 44 +++
redcapAPI-1.2/redcapAPI/R/deleteFiles.R | 58 ++++
redcapAPI-1.2/redcapAPI/R/exportArms.R | 55 ++++
redcapAPI-1.2/redcapAPI/R/exportEvents.R | 54 ++++
redcapAPI-1.2/redcapAPI/R/exportFiles.R | 82 ++++++
redcapAPI-1.2/redcapAPI/R/exportInstruments.R | 37 ++
redcapAPI-1.2/redcapAPI/R/exportMappings.R | 81 ++++++
redcapAPI-1.2/redcapAPI/R/exportMetaData.R | 49 +++
redcapAPI-1.2/redcapAPI/R/exportRecords.R | 223 ++++++++++++++++
redcapAPI-1.2/redcapAPI/R/exportRecords_offline.R |only
redcapAPI-1.2/redcapAPI/R/exportReports.R | 49 +++
redcapAPI-1.2/redcapAPI/R/exportUsers.R | 102 +++++++
redcapAPI-1.2/redcapAPI/R/exportVersion.R | 33 ++
redcapAPI-1.2/redcapAPI/R/fieldToVar.R | 27 ++
redcapAPI-1.2/redcapAPI/R/importFiles.R | 52 +++
redcapAPI-1.2/redcapAPI/R/importRecords.R | 122 +++++++++
redcapAPI-1.2/redcapAPI/R/recodeCheck.R | 181 +++++++++++++
redcapAPI-1.2/redcapAPI/R/redcapAPI-pkg.R |only
redcapAPI-1.2/redcapAPI/R/redcapConnection.R | 74 +++++
redcapAPI-1.2/redcapAPI/R/redcapFactorFlip.R | 20 +
redcapAPI-1.2/redcapAPI/R/redcapProjectInfo.R | 58 ++++
redcapAPI-1.2/redcapAPI/R/syncUnderscoreCodings.R | 45 +++
redcapAPI-1.2/redcapAPI/R/validateImport.R | 82 ++++++
redcapAPI-1.2/redcapAPI/man/allocationTable.Rd |only
redcapAPI-1.2/redcapAPI/man/apiCall.Rd | 59 ++--
redcapAPI-1.2/redcapAPI/man/deleteFiles.Rd | 77 +++--
redcapAPI-1.2/redcapAPI/man/exportArms.Rd | 76 +++--
redcapAPI-1.2/redcapAPI/man/exportEvents.Rd | 62 ++--
redcapAPI-1.2/redcapAPI/man/exportFiles.Rd | 140 +++++-----
redcapAPI-1.2/redcapAPI/man/exportInstruments.Rd | 44 +--
redcapAPI-1.2/redcapAPI/man/exportMappings.Rd | 62 ++--
redcapAPI-1.2/redcapAPI/man/exportMetaData.Rd | 57 ++--
redcapAPI-1.2/redcapAPI/man/exportRecords.Rd | 253 +++++++++++--------
redcapAPI-1.2/redcapAPI/man/exportReports.Rd | 65 +++-
redcapAPI-1.2/redcapAPI/man/exportUsers.Rd | 103 ++++---
redcapAPI-1.2/redcapAPI/man/exportVersion.Rd | 33 +-
redcapAPI-1.2/redcapAPI/man/fieldToVar.Rd | 54 ++--
redcapAPI-1.2/redcapAPI/man/importFiles.Rd | 75 +++--
redcapAPI-1.2/redcapAPI/man/importRecords.Rd | 165 ++++++------
redcapAPI-1.2/redcapAPI/man/recodeCheck.Rd | 136 +++++-----
redcapAPI-1.2/redcapAPI/man/redcapAPI.Rd |only
redcapAPI-1.2/redcapAPI/man/redcapConnection.Rd | 107 ++++----
redcapAPI-1.2/redcapAPI/man/redcapFactorFlip.Rd | 34 +-
redcapAPI-1.2/redcapAPI/man/redcapProjectInfo.Rd | 100 ++++---
redcapAPI-1.2/redcapAPI/man/syncUnderscoreCodings.Rd | 79 +++--
redcapAPI-1.2/redcapAPI/man/validateImport.Rd | 121 +++++----
54 files changed, 2726 insertions(+), 942 deletions(-)
Title: Draws diagrams useful for checking latent scales
Diff between latdiag versions 0.2 dated 2009-08-02 and 0.2-1 dated 2015-01-16
Description: Writes a file of commands for the dot program to draw a graph
proposed by Rosenbaum and useful for checking some properties of various
sorts of latent scale
Author: Michael Dewey
Maintainer: Michael Dewey
DESCRIPTION | 16 ++++++++--------
MD5 |only
NEWS |only
inst/CITATION | 5 ++---
man/draw.latent.Rd | 15 +++++++++++----
5 files changed, 21 insertions(+), 15 deletions(-)
Title: Royston's H Test: Multivariate Normality Test
Diff between royston versions 1.0 dated 2013-01-02 and 1.1 dated 2015-01-16
Description: Performs a multivariate normality test based on Royston's H test
Author: Selcuk Korkmaz
Maintainer: Selcuk Korkmaz
royston-1.0/royston/R/royston-internal.R |only
royston-1.1/royston/DESCRIPTION | 16 +-
royston-1.1/royston/MD5 | 7
royston-1.1/royston/NAMESPACE | 3
royston-1.1/royston/R/royston.test.R | 237 +++++++++++++++----------------
5 files changed, 133 insertions(+), 130 deletions(-)
Title: Multivariate Statistical Analysis in Chemometrics
Diff between chemometrics versions 1.3.8 dated 2012-02-16 and 1.3.9 dated 2015-01-16
Description: This package is the R companion to the book "Introduction to Multivariate Statistical Analysis in Chemometrics" written by K. Varmuza and P. Filzmoser (2009)
Author: Peter Filzmoser and Kurt Varmuza
Maintainer: P. Filzmoser
DESCRIPTION | 22 +-
MD5 | 169 ++++++++++-----------
NAMESPACE | 76 +++++----
R/Moutlier.R | 2
R/clvalidity.R | 4
R/delintercept.R |only
R/knnEval.R | 4
R/lassoCV.R | 6
R/lassocoef.R | 6
R/lmCV.R | 4
R/mvr_dcv.R | 4
R/nnetEval.R | 2
R/pcaCV.R | 2
R/plotRidge.R | 6
R/plotSEPmvr.R | 2
R/plotpredmvr.R | 2
R/plotresmvr.R | 2
R/prm.R | 2
R/prm_cv.R | 2
R/prm_dcv.R | 2
R/ridgeCV.R | 6
R/stepwise.R | 4
R/svmEval.R | 2
R/treeEval.R | 3
build |only
data/NIR.rda |binary
data/PAC.rda |binary
data/Phenyl.rda |binary
data/ash.rda |binary
data/cereal.rda |binary
data/glass.grp.rda |binary
data/glass.rda |binary
data/hyptis.rda |binary
inst/doc/chemometrics-vignette.R |only
inst/doc/chemometrics-vignette.pdf |binary
inst/doc/chemometrics-vignette.rnw | 10 -
man/Moutlier.Rd | 4
man/NIR.Rd | 6
man/RPvectors.Rd | 4
man/alr.Rd | 4
man/clr.Rd | 4
man/clvalidity.Rd | 4
man/delintercept.Rd |only
man/drawMahal.Rd | 7
man/hyptis.Rd | 3
man/ilr.Rd | 4
man/knnEval.Rd | 4
man/lassoCV.Rd | 27 +--
man/lassocoef.Rd | 4
man/lmCV.Rd | 10 -
man/mvr_dcv.Rd | 81 +++++-----
man/nipals.Rd | 4
man/nnetEval.Rd | 8
man/pcaCV.Rd | 11 -
man/pcaDiagplot.Rd | 7
man/pcaVarexpl.Rd | 4
man/plotRidge.Rd | 4
man/plotSEPmvr.Rd | 26 +--
man/plotSEPprm.Rd | 26 +--
man/plotcompmvr.Rd | 12 -
man/plotcompprm.Rd | 12 -
man/plotpredmvr.Rd | 17 +-
man/plotpredprm.Rd | 14 -
man/plotprm.Rd | 8
man/plotresmvr.Rd | 17 +-
man/plotresprm.Rd | 14 -
man/plotsom.Rd | 4
man/pls1_nipals.Rd | 4
man/pls2_nipals.Rd | 4
man/pls_eigen.Rd | 4
man/prm_cv.Rd | 44 +++--
man/prm_dcv.Rd | 47 +++--
man/ridgeCV.Rd | 17 +-
man/sd_trim.Rd | 4
man/stepwise.Rd | 29 ++-
man/svmEval.Rd | 15 -
man/treeEval.Rd | 4
vignettes/Figures/Fig-02-01-pcaCV.pdf |binary
vignettes/Figures/Fig-02-03-pcaDiagplot-nipals.pdf |binary
vignettes/Figures/Fig-02-04-pcaDiagplot-robust.pdf |binary
vignettes/Figures/Fig-03-01-BIC.pdf |binary
vignettes/Figures/Fig-03-02-lmCV.pdf |binary
vignettes/Figures/Fig-03-13-plotridge.pdf |binary
vignettes/Figures/Fig-04-01-knneval.pdf |binary
vignettes/Figures/Fig-04-03-treeeval.pdf |binary
vignettes/chemometrics-vignette.rnw | 10 -
vignettes/nicefrac.sty |only
vignettes/shadethm.sty |only
vignettes/zi4.sty |only
89 files changed, 488 insertions(+), 392 deletions(-)
Title: Test Analysis Modules
Diff between TAM versions 1.3 dated 2015-01-06 and 1.4-1 dated 2015-01-16
Description:
The package includes marginal and joint maximum likelihood
estimation of uni- and multidimensional item response models
(Rasch, 2PL, 3PL, Generalized Partial Credit, Multi Facets,
Nominal Item Response, Structured Latent Class Analysis,
Mixture Distribution IRT Models, Located Latent Class Models,
Cognitive Diagnostic Models). Latent regression models and
plausible value imputation are also supported.
Author: Thomas Kiefer [aut], Alexander Robitzsch [aut, cre], Margaret Wu [aut]
Maintainer: Alexander Robitzsch
TAM-1.3/TAM/R/taamanify.proc.lavaanmodel.R |only
TAM-1.4-1/TAM/DESCRIPTION | 15 -
TAM-1.4-1/TAM/MD5 | 100 ++++++-----
TAM-1.4-1/TAM/NAMESPACE | 20 +-
TAM-1.4-1/TAM/R/IRT.WrightMap.R |only
TAM-1.4-1/TAM/R/IRTLikelihood.cfa.R |only
TAM-1.4-1/TAM/R/TAM.ic.R | 1
TAM-1.4-1/TAM/R/TAM.itempartable.R | 5
TAM-1.4-1/TAM/R/cfa.extract.itempars.R |only
TAM-1.4-1/TAM/R/change.grep.lavpartable.R | 5
TAM-1.4-1/TAM/R/lavaanify.IRT.R | 25 ++
TAM-1.4-1/TAM/R/lavaanify.grep.MEASERR.R |only
TAM-1.4-1/TAM/R/lavaanify.sirt.v1.R | 28 +--
TAM-1.4-1/TAM/R/lavpartable.grep.underbrace.R | 11 +
TAM-1.4-1/TAM/R/lavpartable2lavsyntax.R | 22 ++
TAM-1.4-1/TAM/R/plot.ctt.R | 2
TAM-1.4-1/TAM/R/summary.tam.R | 1
TAM-1.4-1/TAM/R/summary.tam.fit.R |only
TAM-1.4-1/TAM/R/summary.tam.mml.3pl.R | 1
TAM-1.4-1/TAM/R/tam.fit.R | 15 -
TAM-1.4-1/TAM/R/tam.latreg.R | 26 ++
TAM-1.4-1/TAM/R/tam.mml.2pl.R | 9 -
TAM-1.4-1/TAM/R/tam.mml.3pl.R | 31 ++-
TAM-1.4-1/TAM/R/tam.mml.3pl.algorithm.R | 2
TAM-1.4-1/TAM/R/tam.mml.3pl.est.intercepts.R | 1
TAM-1.4-1/TAM/R/tam.mml.R | 16 +
TAM-1.4-1/TAM/R/tam.mml.mfr.R | 9 -
TAM-1.4-1/TAM/R/tam.pv.R | 12 -
TAM-1.4-1/TAM/R/tam.wle.R | 3
TAM-1.4-1/TAM/R/tam_thurstonian_threshold.R | 2
TAM-1.4-1/TAM/R/tamaan.3pl.mixture.R | 3
TAM-1.4-1/TAM/R/tamaanify.R | 4
TAM-1.4-1/TAM/R/tamaanify.create.A.R | 59 ++++++
TAM-1.4-1/TAM/R/tamaanify.define.method.R | 10 -
TAM-1.4-1/TAM/R/tamaanify.grep.linequations.R | 2
TAM-1.4-1/TAM/R/tamaanify.modelconstraint.loadings.R | 2
TAM-1.4-1/TAM/R/tamaanify.proc.lavaanmodel.R |only
TAM-1.4-1/TAM/R/tamaanify.proc.modelconstraint.R | 20 +-
TAM-1.4-1/TAM/data/data.ctest2.rda |only
TAM-1.4-1/TAM/inst/NEWS | 40 ++++
TAM-1.4-1/TAM/man/IRT.WrightMap.Rd |only
TAM-1.4-1/TAM/man/IRTLikelihood.cfa.Rd |only
TAM-1.4-1/TAM/man/TAM-package.Rd | 2
TAM-1.4-1/TAM/man/cfa.extract.itempars.Rd |only
TAM-1.4-1/TAM/man/data.cqc.Rd | 98 ++++++++++-
TAM-1.4-1/TAM/man/data.ctest.Rd | 34 +++
TAM-1.4-1/TAM/man/data.examples.Rd | 5
TAM-1.4-1/TAM/man/data.geiser.Rd | 70 +++++++
TAM-1.4-1/TAM/man/lavaanify.IRT.Rd | 39 ++++
TAM-1.4-1/TAM/man/tam.fit.Rd | 69 +++++--
TAM-1.4-1/TAM/man/tam.latreg.Rd | 91 +++++++++-
TAM-1.4-1/TAM/man/tam.mml.Rd | 15 -
TAM-1.4-1/TAM/man/tam.pv.Rd | 169 ++++++++++++++++++-
TAM-1.4-1/TAM/man/tamaan.Rd | 60 ++++--
TAM-1.4-1/TAM/man/tamaanify.Rd | 54 ++++--
TAM-1.4-1/TAM/man/tampv2datalist.Rd | 2
TAM-1.4-1/TAM/src/irt_likelihood_cfa2.cpp |only
57 files changed, 972 insertions(+), 238 deletions(-)
Title: Infrastructure for Data Stream Mining
Diff between stream versions 1.1-0 dated 2014-12-18 and 1.1-1 dated 2015-01-16
Description: A framework for data stream modeling and associated data mining tasks such as clustering and classification. The development of this package was supported in part by NSF IIS-0948893 and NIH R21HG005912.
Author: Michael Hahsler [aut, cre, cph],
Matthew Bolanos [aut, cph],
John Forrest [aut, cph]
Maintainer: Michael Hahsler
DESCRIPTION | 8 -
MD5 | 37 +++--
R/DSC_DStream.R | 94 ++++++++------
R/DSC_R.R | 2
R/DSC_TwoStage.R | 2
R/DSC_tNN.R | 43 +++++-
R/DSD_ReadCSV.R | 43 ++----
build/vignette.rds |binary
inst/NEWS | 5
inst/doc/stream.R | 158 +++++++++++++-----------
inst/doc/stream.Rnw | 328 +++++++++++++++++++++++++++++++++-----------------
inst/doc/stream.pdf |binary
man/DSC_DStream.Rd | 8 -
man/DSD_Memory.Rd | 3
man/evaluate.Rd | 2
man/update.Rd | 4
vignettes/classes.pdf |only
vignettes/mcs.pdf |only
vignettes/stream.Rnw | 328 +++++++++++++++++++++++++++++++++-----------------
vignettes/stream.bib | 19 ++
vignettes/time.pdf |only
21 files changed, 687 insertions(+), 397 deletions(-)
Title: Estimation of spatial autoregressive models with and without
heteroskedastic innovations
Diff between sphet versions 1.5 dated 2013-12-11 and 1.6 dated 2015-01-16
Description: Generalized Method of Moment estimation of Cliff-Ord-type
spatial autoregressive models with and without heteroskedastic
innovations
Author: Gianfranco Piras
Maintainer: Gianfranco Piras
DESCRIPTION | 8 ++++----
MD5 | 11 ++++++-----
R/spreg.R | 2 --
build |only
inst/CITATION | 18 ++++++++++++++++++
inst/doc/sphet.pdf |binary
man/spreg.Rd | 2 ++
7 files changed, 30 insertions(+), 11 deletions(-)
Title: Maxwell Bolzano Bose Einstein Fermi Dirac Distribution and
Exposure Curve
Diff between mbbefd versions 0.5 dated 2015-01-10 and 0.5.0.1 dated 2015-01-16
Description: It contains the definition of Maxwell Bolzano Bose Einstein Fermi Dirac (MBBEFD) distribution (distribution, density, quantile, random generation functions) as well as MBBEFD exposure curve, used in actuarial application to price reinsurance contracts. The vignette shows code snippets to fit the distribution to empirical data.
Author: Giorgio Spedicato
Maintainer: Giorgio Spedicato
ChangeLog | 3 +++
DESCRIPTION | 14 +++++++-------
MD5 | 19 ++++++++++---------
NEWS | 8 +++-----
inst/CITATION | 6 +++---
inst/doc/mbbefd.Rnw | 6 +++---
man/mbbefd-package.Rd | 4 ++--
vignettes/mbbefd-distrPlot.pdf |binary
vignettes/mbbefd-drateplot.pdf |binary
vignettes/mbbefd.Rnw | 6 +++---
vignettes/mbbefd.tex |only
11 files changed, 34 insertions(+), 32 deletions(-)
Title: Sample size calculations for longitudinal data
Diff between longpower versions 1.0-10 dated 2013-09-14 and 1.0-11 dated 2015-01-16
Description: The longpower package contains functions for computing
power and sample size for linear models of longitudinal data
based on the formula due to Liu and Liang (1997) and Diggle et
al (2002). Either formula is expressed in terms of marginal
model or Generalized Estimating Equations (GEE) parameters.
This package contains functions which translate pilot mixed
effect model parameters (e.g. random intercept and/or slope)
into marginal model parameters so that the formulas of Diggle
et al or Liu and Liang formula can be applied to produce sample
size calculations for two sample longitudinal designs assuming
known variance.
Author: Michael C. Donohue, Anthony C. Gamst, Steven D. Edland
Maintainer: Michael C. Donohue
DESCRIPTION | 10 +++++-----
MD5 | 12 ++++++------
R/lmmpower.R | 20 ++++++++++----------
build/vignette.rds |binary
inst/CITATION | 5 ++---
inst/doc/longpower.R | 25 ++++++++-----------------
inst/doc/longpower.pdf |binary
7 files changed, 31 insertions(+), 41 deletions(-)
Title: High-dimensional Kernel Density Estimation and Geometry
Operations
Diff between hypervolume versions 1.1.1 dated 2014-12-19 and 1.1.2 dated 2015-01-16
Description: Estimates the shape and volume of high-dimensional datasets and performs set operations: intersection / overlap, union, unique components, inclusion test, and negative feature detection. Uses stochastic geometry approach to high-dimensional kernel density estimation. Builds n-dimensional convex hulls (polytopes). Can measure the n-dimensional ecological hypervolume and perform species distribution modeling.
Author: Benjamin Blonder
Maintainer: Benjamin Blonder
DESCRIPTION | 10 +++++-----
MD5 | 12 ++++++++----
NAMESPACE | 6 +++---
R/hypervolume_distance.R |only
R/hypervolume_sorensen_overlap.R |only
man/hypervolume_distance.Rd |only
man/hypervolume_set.Rd | 14 +++++++++++---
man/hypervolume_sorensen_overlap.Rd |only
src/RcppExports.cpp | 30 +++++++++++++++---------------
9 files changed, 42 insertions(+), 30 deletions(-)
Title: Fuzzy Rule-based Systems for Classification and Regression Tasks
Diff between frbs versions 2.2-0 dated 2014-02-03 and 3.0-0 dated 2015-01-16
Description: This package implements functionality and various algorithms to
build and use fuzzy rule-based systems (FRBSs). FRBSs are based on the
concept of fuzzy sets, proposed by Zadeh in 1965, which aims at
representing the reasoning of human experts in a set of IF-THEN rules, to
handle real-life problems in, e.g., control, prediction and inference, data
mining, bioinformatics data processing, and robotics. FRBSs are also known
as fuzzy inference systems and fuzzy models. During the modeling of an
FRBS, there are two important steps that need to be conducted: structure
identification and parameter estimation. Nowadays, there exists a wide
variety of algorithms to generate fuzzy IF-THEN rules automatically from
numerical data, covering both steps. Approaches that have been used in the
past are, e.g., heuristic procedures, neuro-fuzzy techniques, clustering
methods, genetic algorithms, squares methods, etc. Furthermore, in this
version we provide a universal framework named frbsPMML, which is adopted
from the Predictive Model Markup Language (PMML), for representing FRBS
models. PMML is an XML-based language to provide a standard for describing
models produced by data mining and machine learning algorithms. Therefore,
we are allowed to export and import an FRBS model to/from frbsPMML.
Finally, this package aims to implement the most widely used standard
procedures, thus offering a standard package for FRBS modeling to the R
community.
Author: Lala Septem Riza, Christoph Bergmeir, Francisco Herrera, and
Jose Manuel Benitez
Maintainer: Christoph Bergmeir
DESCRIPTION | 32 -
LICENSE |only
MD5 | 131 ++--
NAMESPACE | 11
R/FCluster.Methods.R | 6
R/FNN.Methods.R | 4
R/FRBS.MainFunction.R | 323 +++++-----
R/FRBS.pmml.R |only
R/FSpacePartition.FunctionCollection.R | 288 ++-------
R/FSpacePartition.Method.R | 6
R/FSpacePartition.Predict.R | 13
R/GFS.Methods.R | 4
R/docData.R | 4
R/frbs-package.R | 201 +++++-
R/pmml.R |only
R/pmml.frbs.R |only
demo/00Index | 26
demo/ANFIS.GasFur.PMML.R |only
demo/FRBS.Mamdani.Manual.R | 22
demo/FRBS.Manual.R | 6
demo/FRBS.TSK.Manual.R | 6
demo/GFS.GCCL.Iris.PMML.R |only
demo/GFS.GCCL.Iris.R | 2
demo/WM.GasFur.PMML.R | 18
man/ANFIS.Rd | 140 ++--
man/ANFIS.update.Rd | 67 +-
man/DENFIS.Rd | 123 +---
man/DENFIS.eng.Rd | 51 -
man/DM.update.Rd | 76 +-
man/ECM.Rd | 50 -
man/FH.GBML.Rd | 134 ++--
man/FIR.DM.Rd | 110 +--
man/FRBCS.CHI.Rd | 128 +---
man/FRBCS.W.Rd | 127 +---
man/FRBCS.eng.Rd | 43 -
man/FS.HGD.Rd | 123 +---
man/GFS.FR.MOGUL.Rd | 147 ++--
man/GFS.FR.MOGUL.test.Rd | 42 -
man/GFS.GCCL.Rd | 131 +---
man/GFS.GCCL.eng.Rd | 42 -
man/GFS.LT.RS.Rd | 163 ++---
man/GFS.LT.RS.test.Rd | 42 -
man/GFS.Thrift.Rd | 144 ++--
man/GFS.Thrift.test.Rd | 42 -
man/HGD.update.Rd | 72 +-
man/HyFIS.Rd | 132 +---
man/HyFIS.update.Rd | 94 +--
man/SBC.Rd | 119 +--
man/SBC.test.Rd | 42 -
man/SLAVE.Rd | 141 ++--
man/SLAVE.test.Rd | 42 -
man/WM.Rd | 175 ++---
man/data.gen3d.Rd | 53 -
man/defuzzifier.Rd | 134 ++--
man/denorm.data.Rd | 59 -
man/frbs-package.Rd | 769 ++++++++++++++-----------
man/frbs.eng.Rd | 91 +--
man/frbs.gen.Rd | 698 +++++++++++------------
man/frbs.learn.Rd | 998 +++++++++++++++------------------
man/frbsData.Rd | 97 +--
man/frbsObjectFactory.Rd | 145 ++--
man/frbsPMML.Rd |only
man/fuzzifier.Rd | 119 +--
man/inference.Rd | 154 ++---
man/norm.data.Rd | 59 -
man/plotMF.Rd | 153 ++---
man/predict.frbs.Rd | 160 ++---
man/read.frbsPMML.Rd |only
man/rulebase.Rd | 270 ++++----
man/summary.frbs.Rd | 244 +++-----
man/write.frbsPMML.Rd |only
71 files changed, 3858 insertions(+), 4190 deletions(-)
Title: Model Selection and Multimodel Inference Based on (Q)AIC(c)
Diff between AICcmodavg versions 2.0-2 dated 2015-01-08 and 2.0-3 dated 2015-01-16
Description: This package includes functions to create model selection tables based on Akaike's information criterion (AIC) and the second-order AIC (AICc), as well as their quasi-likelihood counterparts (QAIC, QAICc). The package also features functions to conduct classic model averaging (multimodel inference) for a given parameter of interest or predicted values, as well as a shrinkage version of model averaging parameter estimates. Other handy functions enable the computation of relative variable importance, evidence ratios, and confidence sets for the best model. The present version works with Cox proportional hazards models and conditional logistic regression ('coxph' and 'coxme' classes), linear models ('lm' class), generalized linear models ('glm', 'vglm', 'hurdle', and 'zeroinfl' classes), linear models fit by generalized least squares ('gls' class), linear mixed models ('lme' class), generalized linear mixed models ('mer' and 'merMod' classes), multinomial and ordinal logistic regressions ('multinom'}, 'polr', 'clm', and 'clmm' classes), robust regression models ('rlm' class), beta regression models ('betareg' class), parametric survival models ('survreg' class), nonlinear models ('nls' and 'gnls' classes), and nonlinear mixed models ('nlme' and 'nlmer' classes). The package also supports various models of 'unmarkedFit' and 'maxLikeFit' classes estimating demographic parameters after accounting for imperfect detection probabilities. Some functions also allow the creation of model selection tables for Bayesian models of the 'bugs' and 'rjags' classes. Objects following model selection and multimodel inference can be formatted to LaTeX using 'xtable' methods included in the package.
Author: Marc J. Mazerolle
Maintainer: Marc J. Mazerolle
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