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Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.



See which versions are available:

$ module avail rgi

Load one version into your environment and run it:

$ module load rgi/6.0.2
$ rgi


Notes from the sysadmin during installation:

$ cd /tmp
$ tar xf 6.0.2.tar.gz
$ cd rgi-6.0.2
$ sudo mkdir -p /export/apps/rgi/6.0.2
$ sudo chown aorth:aorth /export/apps/rgi/6.0.2
$ python3 -m venv /export/apps/rgi/6.0.2/.venv
$ source /export/apps/rgi/6.0.2/.venv/bin/activate
$ pip install --upgrade pip setuptools wheel
$ pip install -r requirements.txt
$ python build
$ python test
$ python install

Still not sure if there are any datasets/databases we need to set up, or if the included tests are supposed to pass…

rgi-software.txt · Last modified: 2023/02/14 11:27 by aorth