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pyproject.toml
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pyproject.toml
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[tool.poetry]
name = "scdef"
version = "0.0.22"
description = "Extract hierarchical signatures of cell state from single-cell data."
license = "MIT"
authors = ["pedrofale <pedro.miguel.ferreira.pf@gmail.com>"]
readme = "README.md"
repository = "https://github.com/cbg-ethz/scdef"
packages = [{include = "scdef", from = "src"}]
[tool.poetry.dependencies]
python = ">=3.9,<4.0"
pandas = "^2.2.2"
numpy = "^1.26.4"
jax = ">=0.4.13"
jaxlib = ">=0.4.13"
tensorflow-probability = "^0.24.0"
scanpy = {extras = ["leidenalg"], version = "^1.9.5"}
anndata = "^0.10.5"
click = "^8.0.1"
tqdm = "^4.64.0"
graphviz = "^0.14.2"
igraph = "^0.10.4"
numba = "^0.60.0"
decoupler = "^1.7.0"
[tool.poetry.group.extras]
optional = true
[tool.poetry.group.extras.dependencies]
leidenalg = '*'
harmonypy = '*'
scanorama = '*'
scikit-learn = '*'
[tool.poetry.dev-dependencies]
bump2version = "^1.0.1"
black = "^23.3.0"
pytest = "^6.2.4"
mkdocs = "^1.4.3"
mkdocstrings = {extras = ["python"], version = "^0.25.2"}
mkdocs-material = "^9.1.18"
mkdocs-jupyter = "^0.24.2 "
notebook = "~6.0.0"
jupyter_contrib_nbextensions = "^0.7.0"