arcinstitute/SE-100M

State Embedding model checkpoints are meant to be used with the Arc State repository.

State is distributed via uv.

Running from pypi

uv tool install arc-state

To generate embeddings given an AnnData:

state emb --model-folder <SE-100M_MODEL_PATH> --input <INPUT_ANNDATA>.h5ad --output <OUTPUT_PATH>.h5ad

Running from source

# Clone repo
git clone github.com:arcinstitute/state
cd state

# Initialize venv
uv venv

# Install
uv tool install -e .

To generate embeddings given an AnnData:

state emb --model-folder <SE-100M_MODEL_PATH> --input <INPUT_ANNDATA>.h5ad --output <OUTPUT_PATH>.h5ad

For model licenses please see MODEL_ACCEPTABLE_USE_POLICY.md, MODEL_LICENSE.md, and LICENSE.md.