getTransitionMatrix.dmm {drimmR}

Get transition matrix of the drifting Markov Model

Description

Evaluate the transition matrix of the DMM at a given position

Usage

## S3 method for class 'dmm'
getTransitionMatrix(x, pos)

Arguments

x

An object of class dmm

pos

A positive integer giving the position along the sequence on which the transition matrix of the DMM should be computed

Value

A transition matrix at a given position

Author(s)

Victor Mataigne, Alexandre Seiller

References

Barbu VS, Vergne N (2018). “Reliability and survival analysis for drifting Markov models: modelling and estimation.” Methodology and Computing in Applied Probability, 1–33. doi: 10.1007/s11009-018-9682-8, https://doi.org/10.1007/s11009-018-9682-8. Vergne N (2008). “Drifting Markov models with polynomial drift and applications to DNA sequences.” Statistical Applications in Genetics Molecular Biology , 7(1) . doi: 10.2202/1544-6115.1326, https://doi.org/10.2202/1544-6115.1326.

See Also

fitdmm

Examples

data(lambda, package = "drimmR")
dmm <- fitdmm(lambda, 1, 1, c('a','c','g','t'),init.estim = "freq", fit.method="sum")
t <- 10
getTransitionMatrix(dmm,pos=t)