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[ Paquet source : glam2  ]

Paquet : glam2 (1064-1) [universe]

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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).

Autres paquets associés à glam2

  • dépendances
  • recommandations
  • suggestions
  • enhances
  • dep: libc6 (>= 2.4)
    Embedded GNU C Library: Shared libraries
    un paquet virtuel est également fourni par libc6-udeb
  • dep: libfftw3-3
    library for computing Fast Fourier Transforms

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Architecture Taille du paquet Espace occupé une fois installé Fichiers
amd64 252,0 ko548,0 ko [liste des fichiers]
i386 236,5 ko508,0 ko [liste des fichiers]