MetaVelvet

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Description

An extension of Velvet assembler to de novo metagenomic assembly. An important step in metagenomics analysis is the assembly of multiple genomes from mixed sequence reads of multiple species in a microbial community. Most conventional pipelines use a single-genome assembler with carefully optimized parameters. A limitation of a single-genome assembler for de novo metagenome assembly is that sequences of highly abundant species are likely misidentified as repeats in a single genome, resulting in a number of small fragmented scaffolds. We extended a single-genome assembler for short reads, known as Velvet, to metagenomic assembly for mixed short reads of multiple species.

Availability

version 1.2

Use

module add metaVelvet-1.2

This makes available the path to the program binaries.

Documentation

http://metavelvet.dna.bio.keio.ac.jp/MV.html#install

Licence

GNU GPL 3

Program manager

meta@cesnet.cz

Homepage

http://metavelvet.dna.bio.keio.ac.jp/