Filewatcher File Search File Search
Catalog
Content Search
» » » » »

glam2

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).

Homepage:
Package version:1064-1
Architecture:kfreebsd-amd64
Distribution:Debian
Filename:glam2_1064-1_kfreebsd-amd64.deb

/usr/share/doc/glam2/README

For installation and usage instructions, view doc/index.html in a web browser.

/usr/share/doc/glam2/README.Debian

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 <moeller@debian.org>  Tue, 13 Nov 2007 00:35:50 +0100

/usr/share/man/man1/glam2-purge.1.gz

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»

/usr/share/man/man1/glam2.1.gz

GLAM2(1)                    glam2 Manual                    GLAM2(1)



NAME
       glam2 - Gapped L
more»

/usr/share/man/man1/glam2format.1.gz

GLAM2FORMAT(1)              glam2 Manual              GLAM2FORMAT(1)



NAME
       glam2format - co
more»

/usr/share/man/man1/glam2mask.1.gz

GLAM2MASK(1)                glam2 Manual                GLAM2MASK(1)



NAME
       glam2mask - mask
more»

/usr/share/man/man1/glam2scan.1.gz

GLAM2SCAN(1)                glam2 Manual                GLAM2SCAN(1)



NAME
       glam2scan - find
more»

/usr/share/doc/glam2/changelog.Debian.gz

glam2 (1064-1) unstable; urgency=low

  [ Charles Plessy ]
  * New upstream release
    - One paragr
more»

Browse inside glam2_1064-1_kfreebsd-amd64.deb

         [DIR]DEBIAN/ (2)  65535+ mirrors
         [DIR]usr/ (2)  65535+ mirrors

Download glam2_1064-1_kfreebsd-amd64.deb

Results 1 - 1 of 1
Help - FTP Sites List - Software Dir.
Search over 15 billion files
© 1997-2016 FileWatcher.com