IDFileConverter

Converts identification engine file formats.

Web Documentation for IDFileConverter

Input ports

1. Type: URI Object
   in [oms,idXML,mzid,fasta,pepXML,protXML,mascotXML,omssaXML,xml,psms,tsv,xquest.xml]
   Input file or directory containing the data to convert. This may be:#br#- a single file in OpenMS database format (.oms),#br#- a single file in a multi-purpose XML format (.idXML, .mzid, .pepXML, .protXML),#br#- a single file in a search engine-specific format (Mascot: .mascotXML, OMSSA: .omssaXML, X! Tandem: .xml, Percolator: .psms, xQuest: .xquest.xml),#br#- a single file in fasta format (can only be used to generate a theoretical mzML),#br#- a single text file (tab separated) with one line for all peptide sequences matching a spectrum (top N hits),#br#- for Sequest results, a directory containing .out files.#br# [oms,idXML,mzid,fasta,pepXML,protXML,mascotXML,omssaXML,xml,psms,tsv,xquest.xml]
2. Type: URI Object
   mz_file [mzML,mzXML,mzData]
   [pepXML, Sequest, Mascot, X! Tandem, mzid, Percolator only] Retention times and native spectrum ids (spectrum_references) will be looked up in this file [mzML,mzXML,mzData,opt.]

Output ports

1. Type: URI Object
   out [oms,idXML,mzid,pepXML,fasta,xquest.xml,mzML]
   Output file [oms,idXML,mzid,pepXML,fasta,xquest.xml,mzML]