Bug#1004152: ITP: malt -- sequence alignment and analysis tool to process sequencing data
Package: wnpp
Severity: wishlist
Owner: Debian-med team <debian-med@lists.debian.org>
X-Debbugs-Cc: debian-devel@lists.debian.org, debian-med@lists.debian.org
* Package name : malt
Version : 0.5.2
Upstream Author : Daniel Huson <daniel.huson@uni-tuebingen.de>
* URL : https://github.com/danielhuson/malt
* License : GPL-3+
Programming Lang: Java
Description : sequence alignment and analysis tool to process sequencing data
MALT, an acronym for MEGAN alignment tool, is a sequence alignment and
analysis tool designed for processing high-throughput sequencing data,
especially in the context of metagenomics. It is an extension of MEGAN6,
the MEGenome Analyzer and is designed to provide the input for MEGAN6,
but can also be used independently of MEGAN6.
The core of the program is a sequence alignment engine that aligns DNA
or protein sequences to a DNA or protein reference database in either
BLASTN (DNA queries and DNA references), BLASTX (DNA queries and protein
references) or BLASTP (protein queries and protein references) mode. The
engine uses a banded-alignment algorithm with ane gap scores and BLOSUM
substitution matrices (in the case of protein alignments). The program
can compute both local alignments (Smith-Waterman) or semi-global
alignments (in which reads are aligned end-to-end into reference
sequences), the latter being more appropriate for aligning metagenomic
reads to references.
The package will be team-maintained in Debian-med team.
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