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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Autores principales: Treangen, Todd J, Koren, Sergey, Sommer, Daniel D, Liu, Bo, Astrovskaya, Irina, Ondov, Brian, Darling, Aaron E, Phillippy, Adam M, Pop, Mihai
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2013
Materias:
Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4053804/
https://www.ncbi.nlm.nih.gov/pubmed/23320958
http://dx.doi.org/10.1186/gb-2013-14-1-r2
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author Treangen, Todd J
Koren, Sergey
Sommer, Daniel D
Liu, Bo
Astrovskaya, Irina
Ondov, Brian
Darling, Aaron E
Phillippy, Adam M
Pop, Mihai
author_facet Treangen, Todd J
Koren, Sergey
Sommer, Daniel D
Liu, Bo
Astrovskaya, Irina
Ondov, Brian
Darling, Aaron E
Phillippy, Adam M
Pop, Mihai
author_sort Treangen, Todd J
collection PubMed
description 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.
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spelling pubmed-40538042014-06-12 MetAMOS: a modular and open source metagenomic assembly and analysis pipeline Treangen, Todd J Koren, Sergey Sommer, Daniel D Liu, Bo Astrovskaya, Irina Ondov, Brian Darling, Aaron E Phillippy, Adam M Pop, Mihai Genome Biol Software 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. BioMed Central 2013 2013-01-15 /pmc/articles/PMC4053804/ /pubmed/23320958 http://dx.doi.org/10.1186/gb-2013-14-1-r2 Text en Copyright © 2013 Treangen et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software
Treangen, Todd J
Koren, Sergey
Sommer, Daniel D
Liu, Bo
Astrovskaya, Irina
Ondov, Brian
Darling, Aaron E
Phillippy, Adam M
Pop, Mihai
MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
title MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
title_full MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
title_fullStr MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
title_full_unstemmed MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
title_short MetAMOS: a modular and open source metagenomic assembly and analysis pipeline
title_sort metamos: a modular and open source metagenomic assembly and analysis pipeline
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4053804/
https://www.ncbi.nlm.nih.gov/pubmed/23320958
http://dx.doi.org/10.1186/gb-2013-14-1-r2
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