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plessy |
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Source: last-align
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Section: science
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Priority: optional
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naoliv |
4187 |
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
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plessy |
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DM-Upload-Allowed: yes
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tille |
4078 |
Uploaders: Charles Plessy <plessy@debian.org>,
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Andreas Tille <tille@debian.org>
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tille |
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Build-Depends: debhelper (>= 9), help2man (>= 1.36.4+nmu1), python-imaging
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tille |
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Standards-Version: 3.9.3
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plessy |
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Homepage: http://last.cbrc.jp/
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plessy |
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Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/last-align/
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Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/last-align/trunk/
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plessy |
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Package: last-align
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Architecture: any
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Depends: ${shlibs:Depends}, ${misc:Depends}
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tille |
4084 |
Recommends: python, python-imaging
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plessy |
2480 |
Description: genome-scale comparison of biological sequences
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plessy |
2479 |
LAST is software for comparing and aligning sequences, typically DNA or
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protein sequences. LAST is similar to BLAST, but it copes better with very
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large amounts of sequence data. Here are two things LAST is good at:
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.
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* Comparing large (e.g. mammalian) genomes.
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* Mapping lots of sequence tags onto a genome.
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.
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The main technical innovation is that LAST finds initial matches based on
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plessy |
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their multiplicity, instead of using a fixed size (e.g. BLAST uses 10-mers).
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This allows one to map tags to genomes without repeat-masking, without becoming
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plessy |
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overwhelmed by repetitive hits. To find these variable-sized matches, it uses
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a suffix array (inspired by Vmatch). To achieve high sensitivity, it uses a
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discontiguous suffix array, analogous to spaced seeds.
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