MotIV (version 1.28.0)

readGademPWMFile: Read Gadem File

Description

This function is use to read a gadem file containing PWM.

Usage

readGademPWMFile(file)

Arguments

file

File's name.

Details

This function is made to read typicaly output file from Gadem (v1.2). Standard name is 'observedPWMs.txt'.

Examples

#####Database and Scores#####
path <- system.file(package="MotIV")
jaspar <- readPWMfile(paste(path,"/extdata/jaspar2010.txt",sep=""))
jaspar.scores <- readDBScores(paste(path,"/extdata/jaspar2010_PCC_SWU.scores",sep=""))

#####Input#####
data(FOXA1_rGADEM)
motifs <- getPWM(gadem)
motifs.trimed <- lapply(motifs,trimPWMedge, threshold=1)