ProbIDtree

Identifies automatically multiple precursors from single tandem mass spectrometry (MS/MS) acquisitions in high-throughput proteomics experiments. ProbIDtree is an algorithm that it (i) can identify peptides from collision-induced dissociation (CID) spectra that contain fragment ions from a single precursor ion and compute accurate probabilities, (ii) is able to identify and statistically validate multiple peptide assignments to a single CID spectrum in cases where multiple precursors were concurrently fragmented, (iii) can capture peptide identifications that are missed by conventional database search engine, (iv) takes advantage of the Bayesian ProbID scoring function to identify correct peptides in complex spectra, and (v) can identify a higher number of peptides than conventional search engines.