Dear Skyline Team,
is there nowadays a solution to the above mentioned issue? We work with targeted acquisitions based on an inclusion list made from a survey full scan on isotope labeled peptides. They exist in dominant charge states between 2 and 5, but only the dominant charge states for each peptide are interesting to build inclusion lists.
Would it be possible to load the survey scan with a target list of all possible charge states, quickly check for correct peak picking by RT and then remove uninteresting charge states which are e.g. <90% of the most intense charge state within each peptide? (Or another workaround which makes manual charge state deletion more feasable, in the best case peptide search independent)
Looking forward a short reply.