🧬 AbTune

AbTune — Layer-wise selective fine-tuning of protein language models for antibodies.

Code from paper AbTune: layer-wise selective Fine-Tuning of protein language models for Antibodies https://www.biorxiv.org/content/10.1101/2025.10.17.682998v1

🚀 Installation

Step 1: (Optional) Install ESMFold

If you plan to use Ab-Tune in ESMFold mode, you must install ESMFold separately. Follow the official installation instructions provided below.

👉 ESMFold GitHub Repository

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Step 2: Install Ab-Tune

you can install Ab-Tune either from PyPI or source.

📦 From PyPI (recommended, once published)

pip install Ab-Tune

🧪 From source (for development)

git clone https://github.com/haddocking/Finetune-Ab
cd Finetune-Ab
pip install .

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🧠 Usage

Ab-Tune provides three running modes that can be selected via a YAML config file.

Example Command-line usage

ab-tune --config configs/ESM2.ymal 

Config file

The config file allows you to specify:

• Running mode (ESM2, Conservation, ESMFold)
• Fine-tuning parameters