README.md

metadata

title: De Novo Peptide Sequencing With InstaNovo and InstaNovo+
emoji: 📊
colorFrom: green
colorTo: green
sdk: gradio
sdk_version: 5.23.1
app_file: app.py
pinned: true
license: apache-2.0
thumbnail: >-
  https://cdn-uploads.huggingface.co/production/uploads/6189aee17d9b289cdebafbd6/tb9e-8Z2_pDsRMkGglcvh.png
short_description: Translate fragment ion peaks into sequence of amino acids

De Novo Peptide Sequencing With InstaNovo and InstaNovo+

This Space provides a web interface for the InstaNovo models for de novo peptide sequencing from mass spectrometry data.

Features:

• Upload MS/MS data in common formats (.mgf, .mzml, .mzxml).
• Choose between fast Greedy Search or more accurate but slower Knapsack Beam Search.
• View predictions directly in the interface.
• Download full results as a CSV file.

How to Use:

1. Upload your mass spectrometry data file.
2. Select the desired decoding method.
3. Click "Predict Sequences".
4. View the results table and download the CSV if needed.

Model:

This demo uses the pretrained model checkpoint.

• Predictions use version instanovo-v1.1.0 for the transformer-based InstaNovo model and version instanovoplus-v1.1.0 for the diffusion-based InstaNovo+ model.

Note: Processing large files can take time, depending on the file size and the chosen decoding method. Knapsack generation can also add to the initial startup time.