[spctools-discuss] Re: OMSSA .pep.xml - PeptideProphetParser read in no data

2009-03-02 Thread Dave Trudgian
David, Many thanks. Works with the enzyme specified to xinteract. Our users are looking forward to trying it out. DT David Shteynberg wrote: > Hi Dave, > > First, which omssa version are you using? Second, you are only > getting 93 results passing your omssa expect filter (default 1) to get >

[spctools-discuss] Re: OMSSA .pep.xml - PeptideProphetParser read in no data

2009-02-27 Thread David Shteynberg
Hi Dave, First, which omssa version are you using? Second, you are only getting 93 results passing your omssa expect filter (default 1) to get more results and better modeling from PeptideProphet set the expect threshold to a high number like 1e6. Third, omssa pepXML format doesn't include som