Dear All, I would like to view the OMSSA results with pepXMLViewer as there some compatibility issues with the latest version of OMSSA and OMSSA Browser.
I have taken standard mgf file and run OMSSA search against it and produced xml formatted output. Then I have used omssa2pepXML (part of the OMSSA distribution) to generate pepXML file. I have also generated mzXML file using latest version of the msconvert from the build of ProteoWizard release: 2.1.2351 (2010-11-3) on Linux box. I am able to view pepXML file using pepXML Viewer, but few things are missing. When I click first few rows of the "IONS" column I am able to view the display (not sure how much extent this display is correct) but after that when I click any item in the same column I am getting an error message "Error-cannot parse scan number ...". I suspect this is due to the fact that the mzXML was generated from mgf file which itself doesn't contain retention time information. I wonder is there anyway I can able to produce reasonable views with mzXML file generated from the mgf file. Please note that I didn't have these problems when I produce mzXML file from the RAW files. with regards, -- Dr. Jagan Kommineni Systems Administrator and Duty Programmer Australian Proteomics Computational Facility Ludwig Institute for Cancer Research, 6th Floor, Royal Melbourne Hospital, Royal Parade, Parkville, Victoria Ph:03 9341-3177. -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
