This github repository will be housing the code I have used as part of my master's research project, as well as a few notes to aid expections and use of the code.
The code used during this project has been produced by the Casanovo Team. The github page is linked here:
Another resource used in this process is the Galaxy-P Interface linked here:
References for Casanovo below:
Yilmaz, M., Fondrie, W. E., Bittremieux, W., Oh, S. & Noble, W. S. De novo mass spectrometry peptide sequencing with a transformer model. in Proceedings of the 39th International Conference on Machine Learning - ICML '22 vol. 162 25514–25522 (PMLR, 2022). https://proceedings.mlr.press/v162/yilmaz22a.html
Yilmaz, M., Fondrie, W. E., Bittremieux, W., Nelson, R., Ananth, V., Oh, S. & Noble, W. S. Sequence-to-sequence translation from mass spectra to peptides with a transformer model. in bioRxiv (2023). doi: https://doi.org/10.1101/2023.01.03.522621