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Title

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

Authors
Brown, Joseph
McCue, Lee Ann
Published in BMC Bioinformatics. 2020, vol. 21, no. 1, p. 257
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.
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PMID: 32571209
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Article (Published version) (1 MB) - public document Free access
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Research group Génomique Evolutionnaire Computationnelle (830)
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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 https://archive-ouverte.unige.ch/unige:139347

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Deposited on : 2020-08-12

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