InterProScan documentation¶
- Introduction
- Release notes: InterProScan 5.71-102.0
- Installation requirements
- Obtaining a copy of InterProScan
- Running InterProScan
- InterProScan test run
- Command-line options
- -dp / –disable-precalc (optional)
- -appl / –applications application_name (optional)
- -i / –fasta sequence_file
- -iprlookup,–iprlookup
- -goterms,–goterms (optional)
- -b / –output-file-base file_name (optional)
- -o / –outfile (optional)
- -pa / –pathways (optional)
- -t / –seqtype (optional)
- -T / –tempdir (optional)
- -dra / –disable-residue-annot (optional)
- -version / –version (optional)
- Included analyses
- Output format
- Optional configuration
- Running InterProScan on an LSF/SGE Cluster
- How to Use InterProScan via Container
- Input formats
- Output formats
- Nucleic acid sequences scan
- The InterProScan Lookup Match Service
- Running InterProScan 5 in Cluster Mode
- Running InterProScan 5 in CONVERT mode
- Improving performance
- Activating Phobius/SignalP/TMHMM analyses
- Providing your feedback
- Known issues
- FAQ
- What should I do if one of the binaries included with InterProScan doesn’t work on my system?
- Where can I find the XSD of the XML output?
- Can I use different binary versions than listed?
- Which cluster does InterProScan support?
- Is there Galaxy has a wrapper for InterProScan?
- I get Java errors on running InterProScan
- How to analyse a huge amount of protein sequences (>30000)?
- Should I filter by e-value?
- Why do I see “Pre-calculated match lookup service failed - analysis proceeding to run locally”?
- How is InterProScan 5 different from InterProScan 4? How do I migrate?
- Installing and compiling binaries used in Interproscan
- cath-resolve-hits (used by CATH-Gene3D)
- PfscanV3/PfsearchV3 (used by ProSite Profiles, ProSite Patterns and HAMAP)
- Hmmer 2 (used by SMART)
- Hmmer 3 (used by CATH-Gene3D, HAMAP, PANTHER, Pfam, PIRSF, SFLD, SUPERFAMILY and NCBIFAM)
- ncoils (used by Coils)
- fingerPRINTScan (used by PRINTS)
- rpsblast/rpsbproc (used by CDD)
- sfld_preprocess/sfld_postprocess (used by SFLD)
- Phobius, TMHMM or SignalP
- Configuration Options
- Change log for InterProScan JSON output format
- Citing InterProScan
- Contact us