So I feel like I don't know much, but I am using entrapment and proportion of false discoveries (FDP) in testing some search algorithms and on one hand it is super cool, and on the other I am wondering why I don't use this more often in proteomics, aside from comp cost.
pubs.acs.org/jprobs/artic...
pubs.acs.org
Bridging the
False Discovery Gap
Abstract. Controlling the false discovery rate (FDR) among discoveries
from
a tandem mass spectrometry proteomics experiment using target decoy
competition