Hi Jamie, Could be a software defect - go ahead and email me the (zipped!) input and output files for the mascot converter and I'll have a look at it. Also include notes pointing me to specific examples of errors in that output file.
Brian -----Original Message----- From: spctools-discuss@googlegroups.com [mailto:spctools-disc...@googlegroups.com] On Behalf Of jamie Sent: Wednesday, May 13, 2009 6:25 PM To: spctools-discuss Subject: [spctools-discuss] Re: Problem for TPP handle the peptide ID in MASCOT without homology score threshold Hello, Thank you for your fast response Yes. The wrong information exist in the pepXML file so It may happened while converting the Mascot to pepXML Any suggestion to solve this problem jamie On 5月14日, 上午2時00分, "Brian Pratt" <brian.pr...@insilicos.com> wrote: > I wonder it it's really PeptideProphet, or the actually the mascot->pepXML > converter? Can you trace this back to the file you fed into PeptideProphet? > > > > -----Original Message----- > From: spctools-discuss@googlegroups.com > > [mailto:spctools-disc...@googlegroups.com] On Behalf Of jamie > Sent: Wednesday, May 13, 2009 9:16 AM > To: spctools-discuss > Cc: lm...@mail.cgu.edu.tw > Subject: [spctools-discuss] Problem for TPP handle the peptide ID in MASCOT > without homology score threshold > > Hello, > I use TPP v4.2 JETSTREAM rev 1, Build 200904071723 and found the > PeptideProphet might randemly generate a value in the "homology score" > column for the Peptide ID without homology threshold in MASCOT. If > this value is higher than the ion score, this peptide will not include > in the peptide list of PepProphet even its score is as high as 60 or > more. > > Is it the bug in TPP or How can I solve this problem? > > jamie- 隱藏被引用文字 - > > - 顯示被引用文字 - --~--~---------~--~----~------------~-------~--~----~ 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 -~----------~----~----~----~------~----~------~--~---
