march: Markov Chains
Version 1.4

Computation of various Markovian models for categorical data including homogeneous Markov chains of any order, MTD models, Hidden Markov models, and Double Chain Markov Models.

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AuthorOgier Maitre, with contributions from Andre Berchtold and Oliver Buschor
Date of publication2016-05-12 14:47:36
MaintainerAndre Berchtold <andre.berchtold@unil.ch>
LicenseGPL-2
Version1.4
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("march")

Man pages

march: Computation of Markovian models for categorical data
march.AIC: Compute Akaike Information Criterion (AIC). The AIC (Akaike...
march.BIC: Compute Bayesian Information Criterion (BIC).
march.Dataset-class: Dataset for march package.
march.dataset.h.extractSequence: Extract a sequence from a dataset.
march.dataset.loadFromDataFrame: Construct a dataset from a data.frame or a matrix.
march.dataset.loadFromFile: Load a dataset from a file.
march.Dcmm-class: A Double Chain Markov Model (DCMM).
march.dcmm.construct: Construct a double chain Markov model (DCMM).
march.dcmm.viterbi: Viterbi algorithm for a DCMM model.
march.Indep-class: An independence model.
march.indep.construct: Construct an independence model (zero-order Markov chain).
march.Mc-class: A Markov chain of order >= 1.
march.mc.construct: Construct an homogeneous Markov Chain.
march.Model-class: A basic and virtual march model.
march.Mtd-class: A Mixture Transition Distribution (MTD) model.
march.mtd.construct: Construct a Mixture Transition Distribution (MTD) model.
march.name: march.Model name.
march.name-march.Dcmm-method: This method is called with the object "march.Dcmm" and...
march.name-march.Indep-method: This method is called with the object "march.Indep" and...
march.name-march.Mc-method: This method is called with the object "march.MC" and provides...
march.name-march.Mtd-method: This method is called with the object "march.Mtd" and...
march.read: Load a march.Model.
march.summary: march.Model Summary.
march.thompson: Thompson Confidence Intervals for a march.Model.
march.thompson-march.Dcmm-numeric-method: This method is called with the object "march.Dcmm" and the...
march.thompson-march.Indep-numeric-method: This method is called with the object "march.Indep" and the...
march.thompson-march.Mc-numeric-method: This method is called with the object "march.Mc" and the...
march.thompson-march.Mtd-numeric-method: This method is called with the object "march.Mtd" and the...
march.write: Save a march.Model
pewee: Song of the Wood Pewee (march dataset format)
pewee_df: Song of the Wood Pewee (data frame format)
pewee_t: Song of the Wood Pewee (text format)
sleep: Sleep disorders (march dataset format)
sleep_df: Sleep disorders (data frame format)

Functions

BuildArrayCombinations Source code
BuildArrayNumberOfDataItems Source code
BuildArrayNumberOfSequences Source code
BuildArrayQ Source code
BuildContingencyTable Source code
CalculateLogLikelihood Source code
CalculateTheilU Source code
InitializeParameters Source code
NormalizeTable Source code
OptimizePhi Source code
OptimizeQ Source code
PartialDerivativesPhi Source code
PartialDerivativesQ Source code
alphat Source code
betat Source code
march Man page
march.AIC Man page Source code
march.BIC Man page Source code
march.Dataset-class Man page
march.Dcmm-class Man page
march.Indep-class Man page
march.Mc-class Man page
march.Model-class Man page
march.Mtd-class Man page
march.ci.h.A Source code
march.ci.h.B Source code
march.ci.h.C Source code
march.ci.h.d2n Source code
march.dataset.h.cut Source code
march.dataset.h.extractSequence Man page Source code
march.dataset.h.filtrateShortSeq Source code
march.dataset.loadFromDataFrame Man page Source code
march.dataset.loadFromFile Man page Source code
march.dcmm.backward Source code
march.dcmm.bw Source code
march.dcmm.construct Man page Source code
march.dcmm.constructEmptyDcmm Source code
march.dcmm.ea.crossover Source code
march.dcmm.ea.evaluation Source code
march.dcmm.ea.h.scale Source code
march.dcmm.ea.initialization Source code
march.dcmm.ea.mutation Source code
march.dcmm.ea.optimizing Source code
march.dcmm.epsilon Source code
march.dcmm.exp_z Source code
march.dcmm.forward Source code
march.dcmm.gamma Source code
march.dcmm.h.compactA Source code
march.dcmm.h.computeLL Source code
march.dcmm.h.encodeOutput Source code
march.dcmm.h.expandRA Source code
march.dcmm.h.expandRAInternal Source code
march.dcmm.h.scaleAlpha Source code
march.dcmm.name Source code
march.dcmm.nbParams Source code
march.dcmm.show Source code
march.dcmm.test Source code
march.dcmm.thompson Source code
march.dcmm.viterbi Man page Source code
march.ea.checkBounds Source code
march.ea.h.sbx Source code
march.h.mc.printableMatrix Source code
march.h.ones Source code
march.h.paramAsInteger Source code
march.h.printMatrix Source code
march.h.seq Source code
march.indep.bailey Source code
march.indep.construct Man page Source code
march.indep.name Source code
march.indep.nbParams Source code
march.indep.show Source code
march.indep.thompson Source code
march.loop Source code
march.mc.construct Man page Source code
march.mc.name Source code
march.mc.nbParams Source code
march.mc.show Source code
march.mc.thompson Source code
march.model.name Source code Source code
march.model.nbParams Source code
march.model.show Source code
march.model.thompson Source code
march.mtd.construct Man page Source code
march.mtd.h.constructEmptyMtd Source code
march.mtd.h.l Source code
march.mtd.h.n Source code
march.mtd.h.z Source code
march.mtd.name Source code
march.mtd.nbParams Source code
march.mtd.show Source code
march.mtd.thompson Source code
march.name Man page Source code
march.name,march.Dcmm-method Man page
march.name,march.Indep-method Man page
march.name,march.Mc-method Man page
march.name,march.Mtd-method Man page
march.read Man page Source code
march.summary Man page Source code
march.thompson Man page Source code
march.thompson,march.Dcmm,numeric-method Man page
march.thompson,march.Indep,numeric-method Man page
march.thompson,march.Mc,numeric-method Man page
march.thompson,march.Mtd,numeric-method Man page
march.write Man page Source code
pewee Man page
pewee_df Man page
pewee_t Man page
sleep Man page
sleep_df Man page

Files

tests
tests/examples
tests/examples/march.dataset.loadFromDataFrame.example.R
tests/examples/march.dcmm.viterbi.example.R
tests/examples/march.BIC.example.R
tests/examples/march.mtd.construct.example.R
tests/examples/march.dcmm.construct.example.R
tests/examples/march.mc.construct.example.R
tests/examples/march.indep.construct.example.R
tests/examples/march.AIC.example.R
tests/examples/march.thompson.example.R
tests/examples/march.name.example.R
NAMESPACE
data
data/pewee_t.txt.bz2
data/sleep.rda
data/pewee_df.rda
data/sleep_df.rda
data/pewee.rda
R
R/march.AllClasses.R
R/march.dcmm.R
R/march.ci.R
R/march.mc.R
R/march.ea.R
R/march.tools.R
R/march.model.R
R/march.dataset.R
R/march.mtd.R
R/march.dcmm.ea.R
R/march.diagnostic.R
R/march.AllGenerics.R
R/march.indep.R
MD5
README
DESCRIPTION
man
man/march.dataset.loadFromFile.Rd
man/march.dataset.h.extractSequence.Rd
man/march.AIC.Rd
man/march.name-march.Indep-method.Rd
man/march.dataset.loadFromDataFrame.Rd
man/march.Dataset-class.Rd
man/march.name.Rd
man/pewee.Rd
man/march.name-march.Mc-method.Rd
man/march.summary.Rd
man/march.Mc-class.Rd
man/march.Model-class.Rd
man/march.Mtd-class.Rd
man/march.mtd.construct.Rd
man/march.name-march.Dcmm-method.Rd
man/march.read.Rd
man/march.thompson.Rd
man/march.dcmm.viterbi.Rd
man/march.indep.construct.Rd
man/pewee_t.Rd
man/march.thompson-march.Mc-numeric-method.Rd
man/march.thompson-march.Indep-numeric-method.Rd
man/march.thompson-march.Mtd-numeric-method.Rd
man/march.dcmm.construct.Rd
man/march.Rd
man/march.Dcmm-class.Rd
man/pewee_df.Rd
man/march.name-march.Mtd-method.Rd
man/sleep.Rd
man/march.thompson-march.Dcmm-numeric-method.Rd
man/march.Indep-class.Rd
man/march.write.Rd
man/sleep_df.Rd
man/march.mc.construct.Rd
man/march.BIC.Rd
march documentation built on May 19, 2017, 3 p.m.