# Easy Handling Discrete Time Markov Chains

## Documentation for package ‘markovchain’ version 0.6.9.11

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Code demos. Use demo() to run them.
- Package NEWS.

## Help Pages

A B C D E F G H I K M N P R S T V misc

markovchain-package | Easy Handling Discrete Time Markov Chains

## -- A --

absorbingStates | Various function to perform structural analysis of DTMC
absorbingStates-method | Class '"markovchain"'
assessOrder | Various functions to perform statistical inference of DTMC
assessStationarity | Various functions to perform statistical inference of DTMC

## -- B --

blanden | Mobility between income quartiles

## -- C --

canonicForm | Various function to perform structural analysis of DTMC
canonicForm-method | Class '"markovchain"'
coerce-method | Class '"markovchain"'
committorAB | Calculates committor of a markovchain object with respect to set A, B
communicatingClasses | Various function to perform structural analysis of DTMC
conditionalDistribution | 'conditionalDistribution' of a Markov Chain
conditionalDistribution-method | Class '"markovchain"'
craigsendi | CD4 cells counts on HIV Infects between zero and six month
createSequenceMatrix | Function to fit a discrete Markov chain
ctmc-class | Class '"ctmc"'
ctmcFit | Function to fit a CTMC

## -- D --

dim-method | Class '"ctmc"'
dim-method | Class '"markovchain"'
dim-method | Class '"markovchainList"'

## -- E --

expectedRewards | Expected Rewards for a markovchain
expectedRewardsBeforeHittingA | Expected first passage Rewards for a set of states in a markovchain
ExpectedTime | Returns expected hitting time from state i to state j

## -- F --

firstPassage | First passage across states
firstPassageMultiple | function to calculate first passage probabilities
fitHigherOrder | Functions to fit a higher order Markov chain
fitHighOrderMultivarMC | Function to fit Higher Order Multivariate Markov chain
freq2Generator | Returns a generator matrix corresponding to frequency matrix

## -- G --

generatorToTransitionMatrix | Function to obtain the transition matrix from the generator.

## -- H --

HigherOrderMarkovChain-class | Class '"HigherOrderMarkovChain"'
holson | Holson data set
hommc | An S4 class for representing High Order Multivariate Markovchain (HOMMC)
hommc-class | An S4 class for representing High Order Multivariate Markovchain (HOMMC)

## -- I --

ictmc | An S4 class for representing Imprecise Continuous Time Markovchains
ictmc-class | An S4 class for representing Imprecise Continuous Time Markovchains
impreciseProbabilityatT | Calculating full conditional probability using lower rate transition matrix
inferHyperparam | Function to infer the hyperparameters for Bayesian inference from an a priori matrix or a data set
initialize-method | Class '"ctmc"'
initialize-method | Class '"markovchain"'
is.accessible | Verify if a state j is reachable from state i.
is.CTMCirreducible | Check if CTMC is irreducible
is.irreducible | Function to check if a Markov chain is irreducible
is.TimeReversible | checks if ctmc object is time reversible

## -- K --

kullback | Example from Kullback and Kupperman Tests for Contingency Tables

## -- M --

markovchain | Easy Handling Discrete Time Markov Chains
markovchain-class | Class '"markovchain"'
markovchainFit | Function to fit a discrete Markov chain
markovchainList-class | Class '"markovchainList"'
markovchainListFit | markovchainListFit
markovchainSequence | Function to generate a sequence of states from homogeneous Markov chains.
multinomialConfidenceIntervals | A function to compute multinomial confidence intervals of DTMC

## -- N --

name | Method to retrieve name of markovchain object
name-method | Method to retrieve name of markovchain object
name<- | Method to set name of markovchain object
name<--method | Method to set name of markovchain object
names-method | Class '"markovchain"'
names<--method | Class '"markovchain"'
noofVisitsDist | return a joint pdf of the number of visits to the various states of the DTMC

## -- P --

period | Various function to perform structural analysis of DTMC
plot-method | Class '"ctmc"'
plot-method | Class '"markovchain"'
predict-method | Class '"markovchain"'
predict-method | Class '"markovchainList"'
predictHommc | Simulate a higher order multivariate markovchain
predictiveDistribution | Function to compute the probability of observing a new data set, given a data set
preproglucacon | Preprogluccacon DNA protein bases sequences
print-method | Class '"markovchain"'
print-method | Class '"markovchainList"'
priorDistribution | Prior Distribution
probabilityatT | Calculating probability from a ctmc object

## -- R --

rain | Alofi island daily rainfall
rctmc | Function to generate a sequence of random CTMC transitions.
recurrentClasses | Various function to perform structural analysis of DTMC
rmarkovchain | Function to generate a sequence of states from homogeneous or non-homogeneous Markov chains.

## -- S --

sales | Sales Demand Sequences
seq2freqProb | Functions to fit a higher order Markov chain
seq2matHigh | Functions to fit a higher order Markov chain
show-method | Function to display the details of hommc object
show-method | Class '"markovchain"'
show-method | Class '"markovchainList"'
sort-method | Class '"markovchain"'
states | Defined states of a transition matrix
states-method | Class '"ctmc"'
states-method | Defined states of a transition matrix
steadyStates | Stationary states of a 'markovchain' objeect
steadyStates-method | Class '"ctmc"'
steadyStates-method | Stationary states of a 'markovchain' objeect
summary-method | Class '"markovchain"'

## -- T --

t-method | Class '"markovchain"'
tm_abs | Single Year Corporate Credit Rating Transititions
transientStates | Various function to perform structural analysis of DTMC
transientStates-method | Various function to perform structural analysis of DTMC
transition2Generator | Return the generator matrix for a corresponding transition matrix
transitionProbability | Function to get the transition probabilities from initial to subsequent states.
transitionProbability-method | Function to get the transition probabilities from initial to subsequent states.

## -- V --

verifyEmpiricalToTheoretical | Various functions to perform statistical inference of DTMC
verifyHomogeneity | Various functions to perform statistical inference of DTMC
verifyMarkovProperty | Various functions to perform statistical inference of DTMC

## -- misc --

!=-method | Class '"markovchain"'
*-method | Class '"markovchain"'
==-method | Class '"markovchain"'
[-method | Class '"markovchain"'
[[-method | Class '"markovchainList"'
^-method | Class '"markovchain"'