MersV1, PubMed, Corpus, bibRecord, 001D31

Ray Meta: scalable de novo metagenome assembly and profiling.

Identifieur interne : 001D31 ( PubMed/Corpus ); précédent : 001D30; suivant : 001D32

Ray Meta: scalable de novo metagenome assembly and profiling.

Auteurs : Sébastien Boisvert ; Frédéric Raymond ; Elénie Godzaridis ; François Laviolette ; Jacques Corbeil

Source :

Genome biology [ 1474-760X ] ; 2012.

RBID : pubmed:23259615

English descriptors

KwdEn :
- Bacteria (classification), Gene Ontology, Genome, Bacterial, High-Throughput Nucleotide Sequencing, Metagenome, Metagenomics (methods), Software.
MESH :
- classification : Bacteria.
- methods : Metagenomics.
- Gene Ontology, Genome, Bacterial, High-Throughput Nucleotide Sequencing, Metagenome, Software.

Abstract

Voluminous parallel sequencing datasets, especially metagenomic experiments, require distributed computing for de novo assembly and taxonomic profiling. Ray Meta is a massively distributed metagenome assembler that is coupled with Ray Communities, which profiles microbiomes based on uniquely-colored k-mers. It can accurately assemble and profile a three billion read metagenomic experiment representing 1,000 bacterial genomes of uneven proportions in 15 hours with 1,024 processor cores, using only 1.5 GB per core. The software will facilitate the processing of large and complex datasets, and will help in generating biological insights for specific environments. Ray Meta is open source and available at http://denovoassembler.sf.net.

DOI: 10.1186/gb-2012-13-12-r122
PubMed: 23259615

Links to Exploration step

pubmed:23259615

Le document en format XML

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<author><name sortKey="Boisvert, Sebastien" sort="Boisvert, Sebastien" uniqKey="Boisvert S" first="Sébastien" last="Boisvert">Sébastien Boisvert</name>
</author>
<author><name sortKey="Raymond, Frederic" sort="Raymond, Frederic" uniqKey="Raymond F" first="Frédéric" last="Raymond">Frédéric Raymond</name>
</author>
<author><name sortKey="Godzaridis, Elenie" sort="Godzaridis, Elenie" uniqKey="Godzaridis E" first="Elénie" last="Godzaridis">Elénie Godzaridis</name>
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<author><name sortKey="Laviolette, Francois" sort="Laviolette, Francois" uniqKey="Laviolette F" first="François" last="Laviolette">François Laviolette</name>
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<author><name sortKey="Corbeil, Jacques" sort="Corbeil, Jacques" uniqKey="Corbeil J" first="Jacques" last="Corbeil">Jacques Corbeil</name>
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<author><name sortKey="Godzaridis, Elenie" sort="Godzaridis, Elenie" uniqKey="Godzaridis E" first="Elénie" last="Godzaridis">Elénie Godzaridis</name>
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<front><div type="abstract" xml:lang="en">Voluminous parallel sequencing datasets, especially metagenomic experiments, require distributed computing for de novo assembly and taxonomic profiling. Ray Meta is a massively distributed metagenome assembler that is coupled with Ray Communities, which profiles microbiomes based on uniquely-colored k-mers. It can accurately assemble and profile a three billion read metagenomic experiment representing 1,000 bacterial genomes of uneven proportions in 15 hours with 1,024 processor cores, using only 1.5 GB per core. The software will facilitate the processing of large and complex datasets, and will help in generating biological insights for specific environments. Ray Meta is open source and available at http://denovoassembler.sf.net. </div>
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<Title>Genome biology</Title>
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Ray Meta: scalable de novo metagenome assembly and profiling.

Ray Meta: scalable de novo metagenome assembly and profiling.

Source :

English descriptors

Abstract

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki