- recipe pfam_scan
pfam_scan.pl is a Perl script calling HMMER v3 to search a FASTA file against a library of Pfam HMMs.
- package pfam_scan¶
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install pfam_scan and update with:: mamba update pfam_scan
To create a new environment, run:
mamba create --name myenvname pfam_scan
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).
Alternatively, use the docker container:
docker pull quay.io/biocontainers/pfam_scan:<tag> (see `pfam_scan/tags`_ for valid values for ``<tag>``)