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. 2019 Jun;29(6):961–968. doi: 10.1101/gr.241299.118

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© 2019 Antipov et al.; Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 2. — The scatter plot of the span and identity for all 2280 unique cyclocontigs in the ISOLATES data set reconstructed by plasmidSPAdes⁺ (A) and the Venn diagram for cyclocontigs identified as plasmids by plasmidVerify, cyclocontigs identified as plasmids by BLAST (span >10%), and cyclocontigs containing ARGs (B). (A) Each dot represents a cyclocontig reported by plasmidSPAdes and verified by plasmidVerify. Red dots represent cyclocontigs containing antibiotic-resistance genes (ARGs). Green dots represent cyclocontigs classified as viral sequences. (B) The Venn diagram illustrates that the HMM-based approach in metaplasmidSPAdes identifies many plasmids with important phenotypes that are missed by a straightforward BLAST-based approach.