PTM site validator: Amino acid sites found to have post-translational modification (PTM) from Proteome Discoverer searches can be validated by identifying modification site specific immonium ion. Note: The tool requires raw files used for the search in .mgf format in the same folder where the PTM site validator is present.
For any enquiries please contact: [email protected] or [email protected]
How to use PTM-Site-Validator
Command line argument:
ptm_site_validator>python PTM_site_validator.py -i PSMs.txt -ft 0.02 -r Path_to_raw_data
positional arguments:
-i Path to the PSM file from PTM search in Proteome Discoverer.
-ft Immonium ion (m/z) search tolerance in Dalton. It is recommended to keep the same search
tolerance used in the main search.
-r Path to the folder in which raw files are stored in .mgf format.
optional arguments:
-h, --help show this help message and exit