word_probabilities {drimmR} | R Documentation |
Probabilities of a word at several positions of a DMM
Description
Probabilities of a word at several positions of a DMM
Usage
word_probabilities(word, pos, x, output_file = NULL, plot = FALSE)
Arguments
word |
A subsequence (string of characters) |
pos |
A vector of integer positions |
x |
An object of class |
output_file |
(Optional) A file containing the vector of probabilities (e.g,"C:/.../PROB.txt") |
plot |
|
Value
A numeric vector, probabilities of word
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, getTransitionMatrix, word_probability, words_probabilities
Examples
data(lambda, package = "drimmR")
dmm <- fitdmm(lambda, 1, 1, c('a','c','g','t'),
init.estim = "freq", fit.method="sum")
word_probabilities("aggctga",c(100,300),dmm, plot=TRUE)