makePWM {seqLogo}R Documentation

Constructing a pwm object

Description

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.

Usage

makePWM(pwm, alphabet="DNA")

Arguments

pwm matrix representing the positon weight matrix
alphabet character the alphabet making up the sequence. Currently, only "DNA" is supported.

Value

An object of class pwm.

Author(s)

Oliver Bembom, bembom@berkeley.edu

Examples

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

[Package seqLogo version 1.8.0 Index]