Hi, I am new to MS analysis. I am analyzing ms data from one organism - fractionated lysate type material. I converted the data format (*.RAW) to mzXML using msconvert (worked great!) and now am ready to perform the database search using X!Tandem (or OMSSA). It seems the workflow after the search is to use Peptide Prophet then Protein Prophet.
Do I have to do a decoy database at any point? And also, I am interested in doing spectral counting. Is there an uncertainty or standard deviation associated with this count? Thanks, Rob R. -- 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.
