This is a tool for using the Clermont 2013 PCR typing method for in silico analysis of E. coli whole genomes or assembled contigs.

• Version: 0.7.0
• Added: August, 2025
• Link: https://github.com/nickp60/EzClermont

See which versions are available:

$ module avail ezclermont

Load one version into your environment and run it:

$ module load ezclermont/0.7.0
$ ezclermont -h

Notes from the sysadmin during installation:

$ module load python/3.10
$ sudo mkdir -p /export/apps/ezclermont/0.7.0
$ sudo chown aorth:aorth /export/apps/ezclermont/0.7.0
$ python -m venv /export/apps/ezclermont/0.7.0
$ source /export/apps/ezclermont/0.7.0/bin/activate
$ python -m pip install -U pip setuptools wheel
$ python -m pip install ezclermont
$ sudo chown -R root:root /export/apps/ezclermont/0.7.0