Cascadia

A transformer model for de novo sequencing of data-independent acquisition mass spectrometry data

Contents

• Getting Started
  • Installation
  • Run de novo sequencing on new data with a trained model
  • Train a new model from scratch
  • Fine tune a model on new data
• File Formats
  • Spectrum Input
  • Output format
  • .asf format
• Usage
  • Sequence
  • Train

If you use Casanovo in your work, please cite the following publication:

Sanders, Justin, et al. ‘A Transformer Model for de Novo Sequencing of Data-Independent Acquisition Mass Spectrometry Data’. bioRxiv, Cold Spring Harbor Laboratory, 2024, https://doi.org/10.1101/2024.06.03.597251.