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Source: sigma-align
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Section: science
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Priority: optional
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Maintainer: Debian-Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
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Uploaders: Charles Plessy <charles-debian-nospam@plessy.org>
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Build-Depends: debhelper (>= 5), libglib2.0-dev
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Standards-Version: 3.7.2
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XS-Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/sigma-align/trunk/
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XS-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/sigma-align
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Homepage: http://www.imsc.res.in/~rsidd/sigma/
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Package: sigma-align
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Architecture: any
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Depends: ${shlibs:Depends}, ${misc:Depends}
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Description: Simple greedy multiple alignment of non-coding DNA sequences
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Sigma ("Simple greedy multiple alignment") is an alignment program with a new
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algorithm and scoring scheme designed specifically for non-coding DNA
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sequence. It uses a strategy of seeking the best possible gapless local
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alignments, at each step making the best possible alignment consistent with
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existing alignments, and scores the significance of the alignment based on the
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lengths of the aligned fragments and a background model which may be supplied
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or estimated from an auxiliary file of intergenic DNA. With real data, while
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"correctness" can't be directly quantified for the alignment, running the
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PhyloGibbs motif finder on pre-aligned sequence suggests that Sigma's
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alignments are superior. It has been published in BMC Bioinformatics. 2006 Mar
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16;7:143.
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