Hi,
We were wondering if there was a way to rank and filter out peptides within proteins based on integrated peak area among all the replicates, as opposed to based on library? I currently have a document with 160 proteins and 2,600+ peptides, with some proteins with 20+ peptides, which is more than what we need (10 being more ideal). We want to streamline the number of peptides to manually go through, and we want to keep all the peptides with the best integrated peak areas among all the replicates before we go through them. I'm assuming when refining the max peptide peak rank is based on the library ranking, and not total replicate integrated peak area. Thanks!
Aaron