write_meme {universalmotif}R Documentation

Export motifs in MEME format.

Description

Convert motifs to minimal MEME format and write to file. See http://meme-suite.org/doc/meme-format.html.

Usage

write_meme(motifs, file, version = 4, bkg, strand)

Arguments

motifs

See convert_motifs() for acceptable formats.

file

character(1) File name.

version

numeric(1) MEME version.

bkg

numeric Background letter frequencies. If missing, will use background frequencies from motif objects (if they are identical); else background frequencies will be set to freq = 1/length(alphabet)

strand

character If missing, will use strand from motif objects (if identical); otherwise will default to "+ -"

Value

NULL, invisibly.

Author(s)

Benjamin Jean-Marie Tremblay, b2tremblay@uwaterloo.ca

References

Bailey T, Boden M, Buske F, Frith M, Grant C, Clementi L, Ren J, Li W, Noble W (2009). “MEME SUITE: tools for motif discovery and searching.” Nucleic Acids Research, 37, W202-W208.

See Also

read_meme()

Other write_motifs: write_homer, write_jaspar, write_matrix, write_motifs, write_transfac

Examples

transfac <- read_transfac(system.file("extdata", "transfac.txt",
                                    package = "universalmotif"))
write_meme(transfac, tempfile())


[Package universalmotif version 1.0.22 Index]