Hi, We're running OMSSA, but it turns out that performance is significantly improved if we use a smaller value for the -hl option. (That is, instead of the default of 30, we'd like to set it to say 5, eg -hl 5).
Because the hl is defined as follows: -hl <Integer> maximum number of hits retained per precursor charge state per spectrum during the search we think that this should have negligible / zero impact on the downstream processes (namely PeptideProphet, iProphet, ProteinProphet). Is this correct? -- 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.
