Refinement Suggestion: Min peptides per protein EXCEPT X alejandro.cohen  2020-05-01

Hi Skyline people

Suggestion for refinement in Skyline\Advanced menu:

Add an option to remove Min peptides per protein with another tick box reading 'EXCEPT for proteins smaller than': X (Da). The value of the intact protein could be estimated from the FASTA file, maybe?

Some smaller proteins (<5-10KDa) give very few good (sometimes only one!) unique tryptic peptides, yet very good quality and signal. You dont want to discard them just because you didn't get enough number of peptides.

Your thoughts?