Ms2pip

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](https://ms2pip.readthedocs.io)
- ...

**Full Changelog**: https://github.com/compomics/ms2pip/compare/v4.0.0-dev13...v4.0.0-dev14

**Full Changelog**: https://github.com/compomics/ms2pip/compare/v4.0.0-dev12...v4.0.0-dev13

**Full Changelog**: https://github.com/compomics/ms2pip/compare/v4.0.0-dev11...v4.0.0-dev12

**Full Changelog**: https://github.com/compomics/ms2pip/compare/v4.0.0-dev10...v4.0.0-dev11

**Full Changelog**: https://github.com/compomics/ms2pip/compare/v4.0.0-dev9...v4.0.0-dev10