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1. MGF-file-splitter MGF-file-splitter Public

   Extract raw file specific spectra from an unassigned spectra file (.mgf) from Proteome Discoverer and generate new .mgf files specific to raw files

   Python 2

2. PTM-Site-Validator PTM-Site-Validator Public

   Validation of modified amino acid sites in peptide sequences by identifying immonium ions in the raw spectra (.mgf format)

   Python 2

3. PTM-Summarizer PTM-Summarizer Public

   Summarize post-translationally modified amino acid sites, peptides and proteins for Proteome Discoverer output

   Python 2

4. Uniqpepextractor Uniqpepextractor Public

   Tryptic peptides unique to a protein/species from a list of multiple proteins/species fasta files can be extracted.

   Python 1

5. Variant-Proteome-DB-Generator Variant-Proteome-DB-Generator Public

   A python command line based script for extraction of annotated variants from VCF file, generating variant proteome database and to check the uniqueness of variant proteins from the database search.

   Python 3

6. Proteogenomic-Pipeline Proteogenomic-Pipeline Public

   Python packages for easy execution of proteogenomic workflow

   Python 1 2