Hi Johan,

Yes, this is a fundamental capability of Skyline. You can set the isotopic peak count in the Transition Settings | Full Scan window.

Thanks for using the Skyline support board,

Brian Pratt

Um, no. This is not possible. We have never heard this request before and at present Skyline always uses either the monoisotopic peak or the average peak m/z, which would only work if you were willing to make your extraction width wide enough to capture the signal in that region, which actually might work okay for PRM, but you would be sacrificing selectivity and making it more like SRM.

So, far, I think we have been getting away with mostly smaller fragment masses and +1 and +2 charge states.

The setting Brian mentioned is for precursors extracted from MS1 scans, not for fragments extracted from MS/MS scans as in the PRM you mentioned.

Sorry, we don't have an easy way of enabling what you are looking for.

--Brendan

Oops, yes - "fragment" was the key word there. Sorry if I got your hopes up!

Brian