Constructing a pwm object

This function constructs an object of class pwm from a matrix. It checks that the matrix has correct dimensions and that columns add up to 1.0.

makePWM(pwm, alphabet = "DNA")

Arguments

pwm

matrix. Numerical matrix representing the position weight matrix.

alphabet

character. The alphabet making up the sequence. Currently, only 'DNA' and 'RNA' is supported.

Value

An object of class pwm.

Author

Oliver Bembom

Examples

mFile <- system.file("extdata/pwm1", package = "seqLogo")
m <- read.table(mFile)
pwm <- makePWM(m)