logmuse>=0.2.8
ubiquerg>=0.6.3
peppy>=0.40.7
requests>=2.31.0
genomicranges>=0.8.3
gtars>=0.2.5
pybiocfilecache==0.6.1
zarr<3.0.0,>=2.17.2
pyyaml>=6.0.1
s3fs>=2024.3.1
pyarrow>=17.0.0
iranges>=0.2.11
numpy>=1.24.0
rich>=13.9.4
safetensors

[ml]
anndata>0.9.0
fastembed>=0.2.5
gensim>=4.3.3
huggingface_hub>=0.25.1
qdrant_client>=1.16.1
paramiko>=3.0.0
pyBigWig>=0.3.23
scanpy>=1.10.3
torch>=2.3.0
langchain-huggingface==0.0.2
hmmlearn>=0.3.2
scipy>=1.13.1
transformers>=4.52.4

[test]
pytest
pytest-remotedata
pytest-mock
black
ruff
isort
