glam2mask1
Masks a glam2 motif in sequences
Usage
glam2mask [options]
my_motif.glam2
my_seqs.fa
Overview
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).
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).
Releases
Unchanged in 9 releases since Debian 5.0 (Lenny).