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1. ThermoRawFileParser ThermoRawFileParser Public

   Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono

   C# 243 59

2. DeepLC DeepLC Public

   DeepLC: Retention time prediction for peptides carrying any modification.

   Python 76 25

3. ms2rescore ms2rescore Public

   Modular and user-friendly platform for AI-assisted rescoring of peptide identifications

   Python 65 21

4. compomics-utilities compomics-utilities Public

   Open source Java library for computational proteomics

   Java 35 17

5. peptide-shaker peptide-shaker Public

   Interpretation of proteomics identification results

   Java 54 20

6. searchgui searchgui Public

   Highly adaptable common interface for proteomics search and de novo engines

   Java 47 15