read_homer {universalmotif}R Documentation

Import HOMER motifs.

Description

Import HOMER formatted motifs. See http://homer.ucsd.edu/homer/motif/. Assumed to be DNA motifs.

Usage

read_homer(file, skip = 0)

Arguments

file

character(1) File name.

skip

numeric(1) If not zero, will skip however many desired lines in the file before starting to read.

Value

list universalmotif objects.

Author(s)

Benjamin Jean-Marie Tremblay, benjamin.tremblay@uwaterloo.ca

References

Heinz S, Benner C, Spann N, Bertolino E, Lin YC, Laslo P, Cheng JX, Murre C, Singh H, Glass CK (2010). “Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities.” Molecular Cell, 38, 576-589.

See Also

Other read_motifs: read_cisbp(), read_jaspar(), read_matrix(), read_meme(), read_motifs(), read_transfac(), read_uniprobe()

Examples

homer <- read_homer(system.file("extdata", "homer.txt",
                                package = "universalmotif"))
[Package universalmotif version 1.10.2 Index]