DARN!


DARN! is a software tool for ncRNA localization. The problem of finding new occurrences of characterized ncRNAs can be modeled as the problem of finding all locally-optimal solutions of a weighted constraint network using dedicated weighted global constraints, encapsulating pattern-matching algorithms and data structures.

Darn! is a RNA motif search tool. It finds all the subsequences that match a specified motif on some input genomic sequence(s).

Darn! uses a weighted constraint solver to localize the portions of a genomic sequence that match a motif. The motif is expressed in a specific language (see section 5). Some motif descriptors are provided with the software for FMN, Lysine, RNaseP, SAM, snoRNA C/D-box and tRNA search.

The predictions could be available in GFF, FASTA and other formats (see section 4).

Darn! can be use on line at this address: http://carlit.toulouse.inra.fr/Darn.

Darn! was developped by Matthias Zytnicki during his PhD in the BIA lab at INRA Toulouse, Franc


Informations générales
Suivi
Maintenu
Informations spécifiques
Langage(s) de développement
C++
N° de version courante
V1.0
Date de la version courante
OS supporté
Type de licence
GPL


Porteur(s)
Unité
MIAT
Equipe
SaAB
Auteur(s)
Matthias Zytnicki
Marie-Josée Cros
Contact
matthias.zytnicki@inra.fr
Publication de référence


 

 

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