PT  - JOURNAL ARTICLE
AU  - Waters, Nicholas R.
AU  - Abram, Florence
AU  - Brennan, Fiona
AU  - Holmes, Ashleigh
AU  - Pritchard, Leighton
TI  - Easily phylotyping <em>E. coli</em> via the EzClermont web app and command-line tool
AID  - 10.1101/317610
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 317610
4099  - http://biorxiv.org/content/early/2018/05/09/317610.short
4100  - http://biorxiv.org/content/early/2018/05/09/317610.full
AB  - 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.Availability and Implementation EzClermont is available as a web app at https://nickp60.pythonanywhere.com. For local use, Ez-Clermont can be installed with pip or installed from the source code at https://github.com/nickp60/ezclermont. All analysis was done with version 0.4.0.Contact n.waters4{at}nuigalway.ieSupplementary information Table S1: test dataset; S2: validation dataset; S3: results.