OmniCell Model Usage Tutorial

Environment Setup

1. Install Dependencies

pip install -r requirements.txt

2. Download Model Checkpoint

Visit https://modelscope.cn/models/PJSucas/OmniCell-v1 to download the model checkpoint file to the OmniCell/checkpoint/ directory.

3. Download Evaluation Data

Visit https://modelscope.cn/datasets/PJSucas/OmniCell-test-data to download the evaluation dataset.

Running the Tutorial

Launch Jupyter Notebook

Learn how to extract cell embeddings in the tutorials/Tutorial_Cluster_blood.ipynb file.