plasmidSPAdes: assembling plasmids from whole genome sequencing data.

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 https://spades.bioinf.spbau.ru/plasmidSPAdes/ CONTACT: [email protected] information: Supplementary data are available at Bioinformatics online.