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inria-00530507, version 1

CG-seq: a toolbox for automatic annotation of genomes by comparative analysis

Benjamin Grenier-Boley a, 1, Antoine De Monte b, 1, Helene Touzet (Auteur à contacter de préférence, http://www.lifl.fr/~touzet) 1, 2

N° RR-7428 (2010)

Résumé : CG-seq is a software pipeline to identify functional regions such as noncoding RNAs or protein coding genes in a genomic sequence by comparative analysis and multispecies comparison. It takes as input a genomic sequence to annotate and a set of other sequences coming from a variety of species to be compared against the user sequence. The pipeline includes several external software components to perform sequence analysis tasks as well as some new features that were especially developed for the purpose. CG-seq is distributed under the GPL licence. It is available both for command line interface usage or with a Graphical User Interface. It can be downloaded from http://bioinfo.lifl.fr/CGseq. A web version can also be runned from this same website for input data of limited length.

  • a –  INRIA Lille - Nord Europe
  • b –  LIFL
  • 1 :  SEQUOIA (INRIA Lille - Nord Europe)
  • INRIA – CNRS : UMR8022 – Université Lille I - Sciences et technologies – Université Lille III - Sciences humaines et sociales
  • 2 :  Laboratoire d'Informatique Fondamentale de Lille (LIFL)
  • CNRS : UMR8022 – Université Lille I - Sciences et technologies – Université Lille III - Sciences humaines et sociales – INRIA
  • Domaine : Informatique/Bio-informatique
    Sciences du Vivant/Bio-Informatique, Biologie Systémique
  • Mots-clés : bioinformatics – computational biology – comparative genomics – genome annotation – gene prediction – noncoding RNAs
  • Référence interne : RR-7428
 
  • inria-00530507, version 1
  • http://hal.inria.fr/inria-00530507
  • oai:hal.inria.fr:inria-00530507
  • Contributeur : Helene Touzet <>
  • Soumis le : Vendredi 29 Octobre 2010, 16:50:12
  • Dernière modification le : Vendredi 29 Octobre 2010, 16:59:05