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/README?revision=1413&view=markup
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 -~----------~----~----~----~------~----~------~--~---
