trimPWMedge: Trim PWM edge
In alyst/MotIV: Motif Identification and Validation

Description Usage Arguments Value Author(s) See Also Examples

This function is use to cut edges with low information content.

1	trimPWMedge(x, threshold=1)

`x`	A matrix representing a PWM.
`threshold`	A transcription factor name or a list of TF names.

A PWM.

Eloi Mercier <emercier@chibi.ubc.ca>

makePWM

#####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)