Casanovo
algorithm · Transformer (AR)
Casanovo: algorithm · Transformer (AR). First Transformer
First Transformer
| Kind | algorithm |
| Family | Transformer (AR) |
| Deep learning | yes |
| Acquisition | DDA |
Code
Live stars, open issues and last-push figures are on the Code activity chart.
Papers
- Spectra Fragment-Ion and Amino Acid Probability Prediction for Peptide Sequencing (2026, thesis)
- Reference-free protein sequencing by consensus assembly of redundant de novo peptide reads (2026, bioRxiv, preprint)
- Tandem Mass Spectra Representation Design for Transformer-Based De Novo Peptide Sequencing (2026, thesis)
- CasanovoGUI: a cross-platform desktop application for deep learning-based de novo peptide sequencing with Casanovo (2026, bioRxiv, preprint)
- Improvements to Casanovo, a Deep Learning De Novo Peptide Sequencer (2025, Journal of Proteome Research, peer-reviewed)
- Improvements to CasaNovo, a deep learning de novo peptide sequencer (2025, bioRxiv, preprint)
- Accounting for Digestion Enzyme Bias in Casanovo (2024, Journal of Proteome Research, peer-reviewed)
- Sequence-to-sequence translation from mass spectra to peptides with a transformer model (2024, Nature Communications, peer-reviewed)
- Sequence-to-sequence translation from mass spectra to peptides with a transformer model (2023, bioRxiv, preprint)
- De novo mass spectrometry peptide sequencing with a transformer model (2022, ICML 2022, ML conference)
- De novo mass spectrometry peptide sequencing with a transformer model (2022, bioRxiv, preprint)