GLAM2MASK(1) glam2 Manual GLAM2MASK(1)
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.
GLAM2 1056 05/19/2008 GLAM2MASK(1)