biopython
genomespy
gprofiler-official
gradio
hydra-core
lingam
matplotlib
jupyter-packaging
MOODS-python
networkx
numpy
omegaconf
openpyxl
pandas
plotly
pooch
pyarrow
pyBigWig
pyfaidx
pyranges
requests
s3fs
scipy
seaborn
seqlogo
tqdm
xmlschema
zarr<3
nglview<4
py3Dmol

[dev]
setuptools_scm
pre-commit
towncrier
ipykernel
jupyter
jupyter-packaging
nglview
py3Dmol
nbsphinx
nbformat
snapatac2
scanpy
scikit-misc

[doc]
sphinx>=7
sphinx-book-theme>=1.1.0
scanpydoc>=0.14.1
sphinx-autodoc-typehints>=1.25.2
myst-parser>=2
myst-nb>=1.1.2
sphinx-design
sphinx-tabs
jupyter-packaging
readthedocs-sphinx-search
sphinxext-opengraph
sphinx-copybutton
nbsphinx>=0.9
ipython>=7.20
matplotlib!=3.6.1
sphinxcontrib-bibtex
setuptools
towncrier

[gpu]
culingam

[test]
pytest>=8.2
pytest-nunit
pytest-mock
pytest-cov
profimp
