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Source: glam2
Section: science
Priority: optional
Maintainer: Debian-Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
DM-Upload-Allowed: yes
Uploaders: Steffen Moeller <moeller@debian.org>, Charles Plessy <plessy@debian.org>
Build-Depends: debhelper (>= 5), cdbs, quilt, libfftw3-dev
Standards-Version: 3.7.3
Homepage: http://bioinformatics.org.au/glam2/
Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/glam2/trunk/?rev=0&sc=0
Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/glam2/trunk/
Package: glam2
Architecture: any
Depends: ${shlibs:Depends}, ${misc:Depends}
Description: gapped protein motifs from unaligned sequences
GLAM2 is a software package for finding motifs in sequences, typically
amino-acid or nucleotide sequences. A motif is a re-occurring sequence
pattern: typical examples are the TATA box and the CAAX prenylation motif. The
main innovation of GLAM2 is that it allows insertions and deletions in motifs.
.
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).
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