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. Author manuscript; available in PMC: 2016 Mar 3.
Published in final edited form as: Anal Chem. 2015 Nov 4;87(22):11361–11367. doi: 10.1021/acs.analchem.5b02721

Figure 1.

Figure 1

Comparison of the numbers of identifications from the data sets extracted by five MS data processing software tools. (a) MS2 files were generated from the four extraction tools and then analyzed by IP2. (b) The RAW file was directly read and then analyzed by MaxQuant using the Andromeda search program but using as closely as possible the same parameters as IP2.