Hello Xiao, You are correct: there is a lower limit in ProteinProphet to disregard peptides below a certain probability and assigned weight. These values (0.2 and 0.5, respectively) are unfortunately hard-coded in the program and cannot be set by the user; in order to change them you would have to alter the code and recompile the software. Cheers, --Luis
On Mon, Nov 21, 2011 at 8:23 AM, Xiao <xiaolovesli...@gmail.com> wrote: > Dear all, > > I have a question about the ProteinProphet. From the link of "More > Analysis Info" in the ProteinProphet results view window, I found the > "min peptide probability" to be 0.2. Is 0.2 the probability threshold > that ProteinProphet uses to select the peptides? If yes, can I set a > different value (if necessary)? > > Thanks, > > Xiao > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to spctools-discuss@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. > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to spctools-discuss@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.
