Package: ruby-crb-blast (0.6.9-4)

[ 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.

Other Packages Related to ruby-crb-blast

• dep: ncbi-blast+

  next generation suite of BLAST sequence search tools

• dep: ruby

  Interpreter of object-oriented scripting language Ruby (default version)

  or ruby-interpreter

  Package not available

• dep: ruby-bio

  Ruby tools for computational molecular biology

• dep: ruby-fixwhich

  ruby module that emulates the 'which' program

• dep: ruby-threach

  Threaded each

• dep: ruby-trollop

  command-line argument processing library

Download ruby-crb-blast

Download for all available architectures

Architecture	Package Size	Installed Size	Files
all	11.7 kB	52.0 kB	[list of files]