FAIMS data processing in Skyline

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FAIMS data processing in Skyline sofani7  2025-03-10 15:05
 

Dear Skyline Team,

What is the recommended workflow for processing FAIMS-acquired MS data in Skyline, from mass spec acquisition (CV selection/optimization) to data analysis (ion mobility visualization and library creation)? Additionally, how does Skyline handle multiple CVs per precursor, and what is the best way to extract and utilize FAIMS CV values?

Best,
Sofanias

 
 
Brian Pratt responded:  2025-03-11 11:25

Hi Sofianas,

Have a look at https://skyline.ms/wiki/home/software/Skyline/page.view?name=Ion Mobility Separation (IMS%2C or Drift Time) Data with particular attention to the part about creating an ion mobility library.

Thanks for using the Skyline support board!

Brian Pratt