per
https://skyline.ms/announcements/home/support/thread.view?rowId=57037
"Hi guys,
The command line documentation lists some options for MS1 filtering that can be changed, under the Document Settings. What do you think about adding the MS/MS filtering options? These are: Acquisition Method, Product mass analyzer, Resolution, and even Isolation Scheme for the DIA acquisition method. A work around could be for an application to store Skyline file templates with the desired settings, but this is not as flexible as programmatic access.
Thanks
Philip"