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Scientific article
Open access
English

ATLAS: a snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data

Published inBMC Bioinformatics, vol. 21, no. 1, 257
Publication date2020
Abstract

Metagenomics studies provide valuable insight into the composition and function of microbial populations from diverse environments; however, the data processing pipelines that rely on mapping reads to gene catalogs or genome databases for cultured strains yield results that underrepresent the genes and functional potential of uncultured microbes. Recent improvements in sequence assembly methods have eased the reliance on genome databases, thereby allowing the recovery of genomes from uncultured microbes. However, configuring these tools, linking them with advanced binning and annotation tools, and maintaining provenance of the processing continues to be challenging for researchers.

Citation (ISO format)
KIESER, Silas et al. ATLAS: a snakemake workflow for assembly, annotation, and genomic binning of metagenome sequence data. In: BMC Bioinformatics, 2020, vol. 21, n° 1, p. 257. doi: 10.1186/s12859-020-03585-4
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ISSN of the journal1471-2105
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Creation07/21/2020 3:04:00 PM
First validation07/21/2020 3:04:00 PM
Update time03/15/2023 10:24:30 PM
Status update03/15/2023 10:24:29 PM
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