findMotifDist: find motif distance

In alexjgriffith/CCCA: Cross Condition ChIP Analyisis

Description

Identifies the indicies of the peaks that have two motifs at a prefered distance from one another. Note that it only takes the smallest distance into account when searching so this function is not suitible when the expected distance between two motifs is great.

Usage

findMotifDist(fasta, motifa, motifb, loc, ...)

Arguments

fasta	The fasta sequences from Biostrings
motifa	a string of IUPAC characters
motifb	a string of IUPAC characters
loc	a list of logicals equal in length to the fasta variable
...	the distances at which peaks will be returned

Value

a list of indicies for peaks that have the motifs at prefered distances

alexjgriffith/CCCA documentation built on May 10, 2019, 8:52 a.m.