RT Journal Article
SR Electronic(1)
A1 Waters, Nicholas R.
A1 Abram, Florence
A1 Brennan, Fiona
A1 Holmes, Ashleigh
A1 Pritchard, LeightonYR 2020
T1 Easy phylotyping of Escherichia coli via the EzClermont web app and command-line tool
JF Access Microbiology,
VO 2
IS 9
OP 
SP e000143
DO https://doi.org/10.1099/acmi.0.000143
PB  Microbiology Society,
SN  2516-8290,
AB  The Clermont PCR method for phylotyping Escherichia coli remains a useful classification scheme even though genome sequencing is now routine, and higher-resolution sequence typing schemes are now available. Relating present-day whole-genome E. coli classifications to legacy phylotyping is essential for harmonizing the historical literature and understanding of this important organism. Therefore, we present EzClermont – a novel in silico Clermont PCR phylotyping tool to enable ready application of this phylotyping scheme to whole-genome assemblies. We evaluate this tool against phylogenomic classifications, and an alternative software implementation of Clermont typing. EzClermont is available as a web app at www.ezclermont.org, and as a command-line tool at https://nickp60.github.io/EzClermont/. ,
UL https://www.microbiologyresearch.org/content/journal/acmi/10.1099/acmi.0.000143

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