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. 2018 Aug 15;18:405. doi: 10.1186/s12879-018-3324-1

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© The Author(s). 2018

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 4 — BMScan Workflow: The figure above shows the workflow for a query in BMScan. The input query is an assembly file in FASTA format. The query gets scanned against the reference collection using Mash. The species and threshold value for each hit is obtained from the SQL database component. If the Mash score of the pairwise comparison was above the threshold for that species, it is considered a high confidence result and is stored for output. If none of the hits were above the threshold values, that query is scanned against the bacterial RefSeq collection with Mash. The top hit from this step is stored for output, and a flag is added noting that this is query did not produce any results that were above the threshold values for our set of species