MetaBinG: using GPUs to accelerate metagenomic sequence classification.

Metagenomic sequence classification is a procedure to assign sequences to their source genomes. It is one of the important steps for metagenomic sequence data analysis. Although many methods exist, classification of high-throughput metagenomic sequence data in a limited time is still a challenge. We...

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Autores principales:	Peng Jia, Liming Xuan, Lei Liu, Chaochun Wei
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/08fd6aa9f1404db6bdb92b3fd966313f
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spelling	oai:doaj.org-article:08fd6aa9f1404db6bdb92b3fd966313f2021-11-18T07:33:42ZMetaBinG: using GPUs to accelerate metagenomic sequence classification.1932-620310.1371/journal.pone.0025353https://doaj.org/article/08fd6aa9f1404db6bdb92b3fd966313f2011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22132069/?tool=EBIhttps://doaj.org/toc/1932-6203Metagenomic sequence classification is a procedure to assign sequences to their source genomes. It is one of the important steps for metagenomic sequence data analysis. Although many methods exist, classification of high-throughput metagenomic sequence data in a limited time is still a challenge. We present here an ultra-fast metagenomic sequence classification system (MetaBinG) using graphic processing units (GPUs). The accuracy of MetaBinG is comparable to the best existing systems and it can classify a million of 454 reads within five minutes, which is more than 2 orders of magnitude faster than existing systems. MetaBinG is publicly available at http://cbb.sjtu.edu.cn/~ccwei/pub/software/MetaBinG/MetaBinG.php.Peng JiaLiming XuanLei LiuChaochun WeiPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 11, p e25353 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Peng Jia Liming Xuan Lei Liu Chaochun Wei MetaBinG: using GPUs to accelerate metagenomic sequence classification.
description	Metagenomic sequence classification is a procedure to assign sequences to their source genomes. It is one of the important steps for metagenomic sequence data analysis. Although many methods exist, classification of high-throughput metagenomic sequence data in a limited time is still a challenge. We present here an ultra-fast metagenomic sequence classification system (MetaBinG) using graphic processing units (GPUs). The accuracy of MetaBinG is comparable to the best existing systems and it can classify a million of 454 reads within five minutes, which is more than 2 orders of magnitude faster than existing systems. MetaBinG is publicly available at http://cbb.sjtu.edu.cn/~ccwei/pub/software/MetaBinG/MetaBinG.php.
format	article
author	Peng Jia Liming Xuan Lei Liu Chaochun Wei
author_facet	Peng Jia Liming Xuan Lei Liu Chaochun Wei
author_sort	Peng Jia
title	MetaBinG: using GPUs to accelerate metagenomic sequence classification.
title_short	MetaBinG: using GPUs to accelerate metagenomic sequence classification.
title_full	MetaBinG: using GPUs to accelerate metagenomic sequence classification.
title_fullStr	MetaBinG: using GPUs to accelerate metagenomic sequence classification.
title_full_unstemmed	MetaBinG: using GPUs to accelerate metagenomic sequence classification.
title_sort	metabing: using gpus to accelerate metagenomic sequence classification.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/08fd6aa9f1404db6bdb92b3fd966313f
work_keys_str_mv	AT pengjia metabingusinggpustoacceleratemetagenomicsequenceclassification AT limingxuan metabingusinggpustoacceleratemetagenomicsequenceclassification AT leiliu metabingusinggpustoacceleratemetagenomicsequenceclassification AT chaochunwei metabingusinggpustoacceleratemetagenomicsequenceclassification
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MetaBinG: using GPUs to accelerate metagenomic sequence classification.

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