Source: ruby-crb-blast
Maintainer: Debian Ruby Extras Maintainers <pkg-ruby-extras-maintainers@lists.alioth.debian.org>
Uploaders: Michael R. Crusoe <michael.crusoe@gmail.com>
Section: ruby
Testsuite: autopkgtest-pkg-ruby
Priority: optional
Build-Depends: debhelper-compat (= 12),
               gem2deb,
               help2man,
               ncbi-blast+,
               rake,
               ruby-bio,
               ruby-fixwhich,
               ruby-shoulda,
               ruby-threach,
               ruby-trollop
Standards-Version: 4.5.0
Vcs-Browser: https://salsa.debian.org/ruby-team/ruby-crb-blast
Vcs-Git: https://salsa.debian.org/ruby-team/ruby-crb-blast.git
Homepage: https://github.com/cboursnell/crb-blast
XS-Ruby-Versions: all
Rules-Requires-Root: no

Package: ruby-crb-blast
Architecture: all
Depends: ncbi-blast+,
         ruby | ruby-interpreter,
         ruby-bio,
         ruby-fixwhich,
         ruby-threach,
         ruby-trollop,
         ${misc:Depends}
Description: 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.
XB-Ruby-Versions: ${ruby:Versions}