Is there a way to run ASAPRatio for labeled data in which the "light" labeled sample is modified? For example, I have mTRAQ labeled data in which the lysines and n-Terminus of peptides are labeled such that the mass of the light labeled sample is increased by ~140 Da and the mass of the heavy labeled sample is increased by ~148 Da.
I have seen some discussion of running two searches, one for light labeled peptides and one for heavy labeled peptides. Is this an acceptable workaround? How should the input arguments be specified to allow for this? Thanks, Mike -- 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.
