Paquet : ruby-crb-blast (0.6.9-5)

[ Paquet source : ruby-crb-blast  ]

Run conditional reciprocal best blast

CRB-BLAST is a novel method for finding orthologs between one set of sequences and another. This is particularly useful in genome and transcriptome annotation.

CRB-BLAST initially performs a standard reciprocal best BLAST. It does this by performing BLAST alignments of query->target and target->query. Reciprocal best BLAST hits are those where the best match for any given query sequence in the query->target alignment is also the best hit of the match in the reverse (target->query) alignment.

Reciprocal best BLAST is a very conservative way to assign orthologs. The main innovation in CRB-BLAST is to learn an appropriate e-value cutoff to apply to each pairwise alignment by taking into account the overall relatedness of the two datasets being compared. This is done by fitting a function to the distribution of alignment e-values over sequence lengths. The function provides the e-value cutoff for a sequence of given length.

Autres paquets associés à ruby-crb-blast

• dep: ncbi-blast+

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• dep: ruby

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• dep: ruby-bio (>= 2.0)

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• dep: ruby-fixwhich (>= 1.0.2)

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• dep: ruby-threach (>= 0.2.0)

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• dep: ruby-trollop (>= 2.0)

  bibliothèque de traitement d’argument de ligne de commande

Télécharger ruby-crb-blast

Télécharger pour toutes les architectures proposées

Architecture	Taille du paquet	Espace occupé une fois installé	Fichiers
all	11,8 ko	52,0 ko	[liste des fichiers]