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IDFileConverter (version 3.1+galaxy0)

Input file or directory containing the data to convert:

This may be:. - a single file in OpenMS database format (.oms),. - a single file in a multi-purpose XML format (.idXML, .mzid, .pepXML, .protXML),. - a single file in a search engine-specific format (Mascot: .mascotXML, OMSSA: .omssaXML, X! Tandem: .xml, Percolator: .psms, xQuest: .xquest.xml),. - a single file in fasta format (can only be used to generate a theoretical mzML),. - a single text file (tab separated) with one line for all peptide sequences matching a spectrum (top N hits),. - for Sequest results, a directory containing .out files.. select fasta,idxml,mascotxml,mzid,pepxml,protxml,psms,sqlite,tabular,xquest.xml data sets(s)

Output file type (default: determined from file extension):

[pepXML, Sequest, Mascot, X:

Tandem, mzid, Percolator only] Retention times and native spectrum ids (spectrum_references) will be looked up in this file select mzdata,mzml,mzxml data sets(s)

[pepXML only] Experiment filename/path (extension will be removed) to match in the pepXML file ('base_name' attribute):

Only necessary if different from 'mz_file'

[pepXML output only] Write output in the format of a PeptideProphet analysis result:

By default a 'raw' pepXML is produced that contains only search engine results

[Percolator only] Which of the Percolator scores to report as 'the' score for a peptide hit:

[FASTA input + MzML output only] Parameters used to adjust simulation of the theoretical spectras

[FASTA input + MzML output only] Parameters used to adjust simulation of the theoretical spectra 0

Advanced Options

Advanced Options 0

Optional outputs: