README.md

# PLANT

PLANT is a protein language model-based antigenic cartography model for seasonal influenza A/H3N2 viruses.

## How to use
Please check the github repository:
https://github.com/TheSatoLab/PLANT

## Google Colab notebook
A Colab notebook for embedding your sequences of interest onto the antigenic map constructed by the full model is available at the following link:  
[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/drive/1sLE3ysElImtxBBIzlGHlFTdDo8_O5aoY?usp=sharing)

## Variants
- **Original PLANT (v1.0)**: the original model used in the bioRxiv paper.
- **PLANT_fixed (v1.1)**: fixed version with improved performance

## Changelog
## Variants
- **Original PLANT (v1.0)**: the original model used in the bioRxiv paper
- **PLANT_fixed (v1.1)**: fixed version with improved performance. Please use the model under **variants/PLANT_fixed/**

## License
MIT License

## Citation
Integrative modeling of seasonal influenza evolution via AI-powered antigenic cartography
Jumpei Ito, Shusuke Kawakubo, Hiroaki Unno, Adam Strange, Spyros Lytras, Kaho Okumura, Alice Lilley, Ruth Harvey, Nicola Lewis, Kei Sato
bioRxiv 2025.08.04.668423; doi: https://doi.org/10.1101/2025.08.04.668423

## Contact
jampei@g.ecc.u-tokyo.ac.jp (Jumpei Ito)