Specifying height and width of chromatograms

Specifying height and width of chromatograms jaltman  2021-06-11

My lab is new to Skyline (and peptide MS), which we're using to analyze VERY simple peptide mixtures eluted from engineered MHC molecules as part of our reagent quality control.

I've asked members of my lab to capture chromatograms in a database as in the attached file. For database display, it would be helpful if all of the chromatograms had the exact same height and width (say 4" wide by 0.75" tall). I've tried to find this in Skyline and on the Support pages, but I haven't been able to find how to do it (assuming it's possible).

Help with this would be much appreciated.

John Altman
Emory University

Brendan MacLean responded:  2021-06-13

There is not really a simple option for this within Skyline. However, it is possible to get all the values you might need, including the chromatograms out of Skyline with a custom report. Then you could write custom plotting code with R or Python. That is likely the best way to fully automate the process. Then you could perform the entire operation from the command-line or using Skyline Batch.

Thanks for posting to the support board and providing the image of what you have in mind. Sorry we don't have a simpler solution for your pipeline processing needs.