motifScoresBigMemory {PWMEnrich}R Documentation

This is a memory intensive version of motifScore() which is about 2 times faster

Description

The parameters and functionality are the same as motifScores. Please refer to documentation of this function for detailed explanation of functionality.

Usage

motifScoresBigMemory(
  sequences,
  motifs,
  raw.scores = FALSE,
  verbose = TRUE,
  cutoff = NULL,
  seq.all = NULL
)

Arguments

sequences

set of input sequences

motifs

set of input PWMs or PFMs

raw.scores

if to return scores for each base-pair

verbose

if to produce verbose output

cutoff

the cutoff for calling binding sites (in base 2 log).

seq.all

already concatenated sequences if already available (used to internally speed up things)

Details

This function is not meant to be called directly, but is indirectly called by motifScores() once a global parameters useBigMemory is set.

See Also

motifScores


[Package PWMEnrich version 4.28.1 Index]