Easily phylotyping E. coli via the EzClermont web app and command-line tool

Waters, Nicholas R. and Abram, Florence and Brennan, Fiona and Holmes, Ashleigh and Pritchard, Leighton (2019) Easily phylotyping E. coli via the EzClermont web app and command-line tool. Working paper. bioRxiv, Cold Spring Harbor, NY.

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    Abstract

    The Clermont PCR method of phylotyping Escherichia coli has remained a useful classification scheme despite the proliferation of higher-resolution sequence typing schemes. We have implemented an in silico Clermont PCR method as both a web app and as a command-line tool to allow researchers to easily apply this phylotyping scheme to genome assemblies easily.