NAME
glam2mask - masks a GLAM2 motif in sequences
SYNOPSIS
glam2mask [options] my_motif.glam2 my_seqs.fa
DESCRIPTION
glam2mask masks a glam2 motif out of sequences, so that weaker motifs
can be found. Masking replaces residues aligned to key positions with
the symbol ´x´. By alternately applying glam2 and glam2mask several
times, it is possible to find the strongest, second-strongest,
third-strongest, etc. motifs in a set of sequences.
OPTIONS (DEFAULT SETTINGS)
-o
Output file (stdout).
-x
Mask character (x).
SEE ALSO
glam2format(1), glam2(1), glam2-purge(1), glam2scan(1)
The full Hypertext documentation of GLAM2 is available online at
http://bioinformatics.org.au/glam2/ or on this computer in
/usr/share/doc/glam2/.
REFERENCE
If you use GLAM2, please cite: MC Frith, NFW Saunders, B Kobe, TL
Bailey (2008) Discovering sequence motifs with arbitrary insertions and
deletions, PLoS Computational Biology (in press).
AUTHORS
Martin Frith
Author of GLAM2.
Timothy Bailey
Author of GLAM2.
Charles Plessy <plessy@debian.org>
Formatted this manpage in DocBook XML for the Debian distribution.
COPYRIGHT
The source code and the documentation of GLAM2 are released in the
public domain.