MetAMOS: a modular and open source metagenomic assembly and analysis pipeline

We describe MetAMOS, an open source and modular metagenomic assembly and analysis pipeline. MetAMOS represents an important step towards fully automated metagenomic analysis, starting with next-generation sequencing reads and producing genomic scaffolds, open-reading frames and taxonomic or function...

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Bibliographic Details
Published in:Genome biology 2013-01, Vol.14 (1), p.R2-R2, Article R2
Main Authors: Treangen, Todd J, Koren, Sergey, Sommer, Daniel D, Liu, Bo, Astrovskaya, Irina, Ondov, Brian, Darling, Aaron E, Phillippy, Adam M, Pop, Mihai
Format: Article
Language:English
Subjects:
bioinformatics
computer software
Contig Mapping
Contig Mapping - methods
Internet
metagenomics
Metagenomics - methods
methods
open reading frames
sequence analysis
Sequence Analysis, DNA
Sequence Analysis, DNA - methods
Software
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Summary:We describe MetAMOS, an open source and modular metagenomic assembly and analysis pipeline. MetAMOS represents an important step towards fully automated metagenomic analysis, starting with next-generation sequencing reads and producing genomic scaffolds, open-reading frames and taxonomic or functional annotations. MetAMOS can aid in reducing assembly errors, commonly encountered when assembling metagenomic samples, and improves taxonomic assignment accuracy while also reducing computational cost. MetAMOS can be downloaded from: https://github.com/treangen/MetAMOS .
ISSN:1465-6906
1474-760X
1465-6914
1474-760X
DOI:10.1186/gb-2013-14-1-r2