Here's my simple, crude python code to convert MSF to SQT format, and I confirm that it can be converted to pepxml with TPP Sqt2XML script.
Few things to mention: * Sqt2XML script truncate terminal AA at both ends, but MSF does not have that info. So I put a dummy AA 'X' at both end. * I still cannot find the AA modification info in MSF, so calculated mass in ''Match' record can be incorrect depending on modification. * deltaCn has various definitions (I didn't know that). http://mspire.rubyforge.org/spec_id/srf.html I took the original definition for this script. http://www.marcottelab.org/users/taejoon/MS/msf-to-sqt.py.txt You can run this with the following simple command (after changing filename & permission, of course): ./msf-to-sqt.py my_file.msf I think there is an expert for this kind of task (inside TPP project). I post this to save his/her time to dig MSF schema (that's what I did yesterday). Of course I am happy to see him/her to take my code, and make a single script to convert MSF to pepxml directly. :-) Cheers, Taejoon -- 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.
