Fully refactored and drastically more user-friendly version of MS²PIP:
- More modular Python API
- One consolidated command-line interface with subcommands
- Support for all file formats readable by psm_utils
- Support for MGF, mzML, and Bruker raw spectrum files
- Support for ProForma 2.0 peptide notation (no modification configuration required anymore)
- Support for multiple peptides/PSMs per spectrum
- Detailed documentation on ms2pip.readthedocs.io
- ...