Hi Luis, Thanks a lot for your response.
I used the x!Tandem results, all.pep.xml + original mzXML files as input. But I got following error. Features calculated for: 24780 (1171916 ms) Training set: 12699/0 (good/bad) Unassigned spectra: 2611 ERROR: Training set distribution unusable. I searched the post in the group, and used -p0 option, but still I got the same results. Does that mean my original mzXML has too little low quality spectral data? Thanks again, Ping On Apr 15, 11:44 am, Luis Mendoza <lmend...@systemsbiology.org> wrote: > Hello Ping, > Qualscore uses a pepXML file with *all* PeptideProphet probabilities (i.e. > P>=0.0). As such, you will first need to search your data and run it > through PeptideProphet before you can use QualScore. You can find more > information about the algorithm in the publication listed in the README > file:http://sashimi.svn.sourceforge.net/viewvc/sashimi/trunk/qualscore/REA... > > Best of luck, and thanks for trying out our software. > --Luis > > On Wed, Apr 15, 2009 at 10:15 AM, Ping <yanpp...@gmail.com> wrote: > > > Hi All, > > > I just downloaded the qualscore from sashimi, and installed it on my > > Ubuntu machine. The command line should be: > > > java -jar qualscore_v1.0_2.jar someXML file > > > I am not sure what this XML suppose to be look like? Can anyone send > > me an example of it? > > > I am a newbie in this area. So please forgive me if the question is > > too simple. > > > Thanks! > > > Ping --~--~---------~--~----~------------~-------~--~----~ 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 -~----------~----~----~----~------~----~------~--~---
