motifor: Find over-represented motifs in a foreground list using...

In mengchen18/PTMotif: Detect PTM motifs

Description

Find over-represented motifs in a foreground list using hypergeometric test

Usage

motifor(fg.count, n.fg.seqs, bg.seqs, ncores = 1, max.pvalue = 1e-06)

Arguments

fg.count	a names integer vector. The names are the sequence motifs and the integers indicate the frequency of each motifs in the input sequences, usually return by motif_all or motif_cvp.
n.fg.seqs	the number of foreground sequences
bg.seqs	a character vector of background sequences
ncores	the number of cores to be used, passed to mclapply.
max.pvalue	the maximum FDR to be reported

Value

a data.frame of the over-representation data analysis

Author(s)

Chen Meng

mengchen18/PTMotif documentation built on May 29, 2019, 6:53 p.m.