InterProScan software combines several protein motifs/domains search tools together. It allows users to scan protein sequences at one time against several signature databases including Prosite, PRINTS, PFAM, P roDom, Smart, TIGRFAMs, SignlP, Trans memberane etc., and also gives GO annotation.
To run this software interactively in a Linux environment run the commands:
module load interproscan iprscan -cli -i <seqfile> -o <output file>
For documentation, refer to the InterProScan homepage, or run the command
iprscan -cli -help
Other InterProScan programs are available in the directory
where VER is the version of InterProScan you are using.
Version 5.0 Available
Version 5.0 is now available through the interproscan/5.0 module. The new version is significantly different from previous versions. Please refer to the developer's migration guide to get started.
Note that v5.0 replaces the iprscan command with interproscan.sh.
Version 5.23 Available, with Local Lookup Service
Version 5.23 is available on all Linux systems through the interproscan/5.23-62.0 module. This module is configured to run locally, without communicating with the InterProScan servers. This can greatly speed up certain workflows. Usage instructions can be found here. Note that you can start the local lookup service with the command start_lookup_service.sh. This will take at least 15 minutes to start in the background, after which you can run other InterProScan commands normally.
When using version 5.23, please request at least 12 processors and 8GB of memory. This version should not be run from the login nodes.