InterProScan

By | September 22, 2011

InterProScan

usage: iprscan [-appl <name> ...] [-nocrc] [-seqtype p|n] [-trlen <N>] [-trtable <table>]
[-iprlookup] [-goterms] -i <seqfile> [-o <output file>]

-i <seqfile> Your sequence file (mandatory).
-o <output file> The output file where to write results
-appl <name> Application(s) to run (optional, use ‘+’ as separator for multiple applications), default is all.
Possible values (dependent on set-up):
blastprodom
fprintscan
hamap
hmmpfam
hmmpir
hmmpanther
hmmtigr
hmmsmart
superfamily
gene3d
patternscan
profilescan
seg
coils
-nocrc Don’t perform CRC64 check, default is on.
-seqtype <type> Sequence type: n for DNA/RNA, p for protein (default).
-trlen <n> Transcript length threshold (20-150).
-trtable <table> Codon table number.
-goterms Show GO terms if iprlookup option is also given.
-iprlookup Switch on the InterPro lookup for results.
-format <format> Output results format (raw, txt, html, xml(default), ebixml(EBI header on top of xml), gff)
-verbose Print messages during run

Name
InterProScan
Documentation
http://www.ebi.ac.uk/Tools/InterProScan/help.html
Protocol
SOAP
WSDL
Endpoint
http://webservices.genouest.org/opal2/services/InterProScan
Topic
Function Prediction, Motifs
Type
Analysis
Tags
Description

InterProScan usage: iprscan [-appl <name> ...] [-nocrc] [-seqtype p|n] [-trlen <N>] [-trtable <table>] [-iprlookup] [-goterms] -i <seqfile> [-o <output file>] [...]

Further information

InterProScan

usage: iprscan [-appl <name> ...] [-nocrc] [-seqtype p|n] [-trlen <N>] [-trtable <table>]
[-iprlookup] [-goterms] -i <seqfile> [-o <output file>]

-i <seqfile> Your sequence file (mandatory).
-o <output file> The output file where to write results
-appl <name> Application(s) to run (optional, use ‘+’ as separator for multiple applications), default is all.
Possible values (dependent on set-up):
blastprodom
fprintscan
hamap
hmmpfam
hmmpir
hmmpanther
hmmtigr
hmmsmart
superfamily
gene3d
patternscan
profilescan
seg
coils
-nocrc Don’t perform CRC64 check, default is on.
-seqtype <type> Sequence type: n for DNA/RNA, p for protein (default).
-trlen <n> Transcript length threshold (20-150).
-trtable <table> Codon table number.
-goterms Show GO terms if iprlookup option is also given.
-iprlookup Switch on the InterPro lookup for results.
-format <format> Output results format (raw, txt, html, xml(default), ebixml(EBI header on top of xml), gff)
-verbose Print messages during run

Original source
BioCatalogue

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