Bug#378289: ITP: sigma-align -- Simple greedy multiple alignment of non-coding DNA sequences

[Charles Plessy <charles-debian-nospam@plessy.org>]

Package: wnpp
Severity: wishlist
Owner: Charles Plessy <charles-debian-nospam@plessy.org>


  Package name    : sigma-align
  Version         : 1.0
  Upstream Author : Rahul Siddharthan <rsidd@imsc.res.in>
  URL             : http://www.imsc.res.in/~rsidd/sigma/
  License         : GPL
  Description     : Simple greedy multiple alignment of non-coding DNA sequences

 Sigma ("Simple greedy multiple alignment") is an alignment program with
 a new algorithm and scoring scheme designed specifically for non-coding
 DNA sequence. It uses a strategy of seeking the best possible gapless
 local alignments, at each step making the best possible alignment
 consistent with existing alignments, and scores the significance of the
 alignment based on the lengths of the aligned fragments and a
 background model which may be supplied or estimated from an auxiliary
 file of intergenic DNA. With real data, while "correctness" can't be
 directly quantified for the alignment, running the PhyloGibbs motif
 finder on pre-aligned sequence suggests that Sigma's alignments are
 superior. It has been published in BMC Bioinformatics. 2006 Mar
 16;7:143.
 .
  Homepage: http://www.imsc.res.in/~rsidd/sigma/


-- System Information:
Debian Release: testing/unstable
  APT prefers unstable
  APT policy: (500, 'unstable'), (500, 'testing')
Architecture: powerpc (ppc64)
Shell:  /bin/sh linked to /bin/bash
Kernel: Linux 2.6.16farm
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8)