Refining CE optimizations with smaller step size | rschoenh | 2024-06-17 04:44 | |||||||||||||||||||||
Dear Skyline Team, This is Regine from the Paulovich lab with another question about CE optimization. As part of our CE optimization process, we do a preliminary CE optimization run using a 3V step size. We then want to do a refinement run with a 1V step size. In the Transition Settings, we checked the “Use optimization values when present” box and we have “Optimize by: Transitions” chosen. However, we noticed that the csv file that we export for the refinement run does not have the center CE value corresponding to the best CE value that was found in the 3V data for each transition. Instead, the resulting csv has the same center value defined for each transition, despite the fact that the center value is quite different for some of the transitions. How can we force it to use the previous, 3V data to choose a best CE value as the center CE value for the 1V step size optimization? (We've been manually adjusting the csv files so far before running our refinement mass spec run.) I'm attaching a couple of files that show this problem. Thanks very much in advance for your help! ~Regine |
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