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The package includes these programs: glam2: discovering motifs shared by a set of sequences; glam2scan: finding matches, in a sequence database, to a motif discovered by glam2; glam2format: converting glam2 motifs to standard alignment formats; glam2mask: masking glam2 motifs out of sequences, so that weaker motifs can be found; glam2-purge: removing highly similar members of a set of sequences.
In this package, the fast Fourier algorithm (FFT) was enabled for glam2.
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).
For installation and usage instructions, view doc/index.html in a web browser.
glam2 for Debian ---------------- We renamed purge glam2-purge, to avoid namespace collision. glam2 is compiled with -O2 optimisation level. Please contact us if you notice performance issues compared to -O3. -- Steffen Moeller <firstname.lastname@example.org> Tue, 13 Nov 2007 00:35:50 +0100
GLAM2-PURGE(1) glam2 Manual GLAM2-PURGE(1) NAME glam2-purge - Removes redundant sequences from a FASTA file SYNOPSIS glam2-purge file score [options] DESCRIPTION glam2-purge is a modified version of Andrew Neuwald´s purge program that removes redundant sequences from a FASTA file. This is recommended in order to prevent highly simi more»
GLAM2(1) glam2 Manual GLAM2(1) NAME glam2 - Gapped L more»
GLAM2FORMAT(1) glam2 Manual GLAM2FORMAT(1) NAME glam2format - co more»
GLAM2MASK(1) glam2 Manual GLAM2MASK(1) NAME glam2mask - mask more»
GLAM2SCAN(1) glam2 Manual GLAM2SCAN(1) NAME glam2scan - find more»
glam2 (1064-1) unstable; urgency=low [ Charles Plessy ] * New upstream release - One paragr more»