rphast (version 1.1)

read.hmm: Read an HMM object from a file...

Description

Read an HMM object from a file

Usage

read.hmm(filename)

Arguments

filename

The file to read

Value

• An hmm object

Details

This function uses phast's internal hmm format, which is quite simple. See write.hmm or file used in example below for exaples of hmm format.

Examples

exampleArchive <- system.file("extdata", "examples.zip", package="rphast")
file <- "coding.hmm"
unzip(exampleArchive, file)
# this is a 5-state hmm with states representing
# intergenic, intron, first, second, and third codon positions.
h <- read.hmm(file)
h
unlink(file)