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    plasmidSPAdes: assembling plasmids from whole genome sequencing data
    Oxford University Press (OUP) ; 2016
    In:  Bioinformatics Vol. 32, No. 22 ( 2016-11-15), p. 3380-3387
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    In: Bioinformatics, Oxford University Press (OUP), Vol. 32, No. 22 ( 2016-11-15), p. 3380-3387
    Abstract: Motivation: Plasmids are stably maintained extra-chromosomal genetic elements that replicate independently from the host cell’s chromosomes. Although plasmids harbor biomedically important genes, (such as genes involved in virulence and antibiotics resistance), there is a shortage of specialized software tools for extracting and assembling plasmid data from whole genome sequencing projects. Results: We present the plasmidSPAdes algorithm and software tool for assembling plasmids from whole genome sequencing data and benchmark its performance on a diverse set of bacterial genomes. Availability and Implementation:  plasmidSPAdes is publicly available at http://spades.bioinf.spbau.ru/plasmidSPAdes/ Contact:  d.antipov@spbu.ru Supplementary information:  Supplementary data are available at Bioinformatics online.
    Type of Medium: Online Resource
    ISSN: 1367-4803 , 1367-4811
    URL: Article
    DOI: 10.1093/bioinformatics/btw493
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2016
    detail.hit.zdb_id: 1468345-3
    SSG: 12
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