# Core
anndata>=0.10.0
biopython>=1.79
click
numpy>=1.22.0,<2
pandas>=1.4.2
pyfaidx>=0.8.0
scipy>=1.7.3
seaborn>=0.11
tqdm

# Graph / clustering
fastcluster
igraph
leidenalg
networkx>=3.2

# Genomics / informatics
pod5>=0.1.21
pybedtools>=0.12.0
pyBigWig>=0.3.24
pysam>=0.19.1
scanpy>=1.11

# ML / modeling
captum
hydra-core
lightning
omegaconf
scikit-learn>=1.0.2
shap
torch>=1.9.0
wandb

# QC / viz
multiqc
upsetplot
