Hello John, Thank you for your question.
NSP in iProphet looks at all proteins that a given peptide matches, it then sums the probabilities of all the other peptides that match the same protein. For a given peptide it then takes as the NSP the maximum such sum over all the proteins matched. It is a bit different from NSP in ProteinProphet since in ProteinProphet a given peptide has a different NSP in each protein it appears. -David On Fri, Feb 19, 2016 at 11:04 AM, John Damask <jbdam...@gmail.com> wrote: > Hi, > > I'm interested in learning more about how iProphet's NSP model works. The > original paper doesn't discuss it as a first class iProphet model and Fig1 > only shows it in ProteinProphet. > > In this post > <https://groups.google.com/forum/#!searchin/spctools-discuss/iprophet$20nsp/spctools-discuss/mLAMdJUP8AQ/wGQfI0061scJ> > David states "I have found that applying the NSP model at the iProphet step > greatly improves performance on peptide level". But what is it doing, > exactly? > > Thanks for providing such great software to the community! > John > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to spctools-discuss+unsubscr...@googlegroups.com. > To post to this group, send email to spctools-discuss@googlegroups.com. > Visit this group at https://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
