numpy
pandas
seaborn
matplotlib
numba
scanpy>=1.5
anndata>=0.7.2
h5py
scipy
scikit-learn
scikit-misc
louvain>=0.8
leidenalg
umap-learn
pydot
igraph>=0.10
llvmlite
deprecated

[bbknn]
bbknn==1.3.9

[desc]
desc==2.0.3

[dev]
build
twine
isort
bump2version
pre-commit

[docs]
sphinx
sphinx_rtd_theme
myst_parser
sphinx-automodapi

[harmony]
harmony-pytorch

[mnn]
mnnpy==0.1.9.5

[rpy2]
rpy2>=3
anndata2ri

[scanorama]
scanorama==1.7.0

[scgen]
scgen>=2.1.0

[scvi]
scvi-tools>=0.16.1

[test]
pytest
pytest-icdiff
pytest-cov
codecov

[trvae]
trvae==1.1.2

[trvaep]
trvaep==0.1.0
