bump Can someone please describe how ProteinProphet employs I->L exchange?
thanks On Sep 7, 11:22 am, John Damask <jbdam...@gmail.com> wrote: > Hi, > We're running TPP v4.3 rev1 and I have a question about > ProteinProphet. We just ran into a case where an I->L exchange in a > peptide made the difference between two isoforms. ProteinProphet > claims it took this into account, "residue_substitution_list=I -> L" > in the protXml header, but I don't see evidence the substitution was > considered; if it were, the isoform with fewer peptides should have > been subsumed. As a result, both isoforms were identified with > protein_probability=1. > > How does ProteinProphet use this switch? > Thanks, > John -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to spctools-disc...@googlegroups.com. To unsubscribe from this group, send email to spctools-discuss+unsubscr...@googlegroups.com. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
