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pyproject.toml
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[tool.poetry]
name = "scGPT"
version = "0.1.2.post1"
description = "Large-scale generative pretrain of single cell using transformer."
license = "MIT"
authors = ["Haotian <[email protected]>"]
repository = "https://github.com/bowang-lab/scGPT"
homepage = "https://github.com/bowang-lab/scGPT"
readme = "README.md"
[tool.poetry.dependencies]
python = ">=3.7.13,<3.11"
pandas = "1.3.5"
scvi-tools = "^0.16.0"
llvmlite = "^0.38.0"
scanpy = "~1.9.1"
torch = "1.13.0"
torchtext = "0.14.0"
transformers = "^4.18.0"
numba = "^0.55.1"
scikit-misc = "^0.1.4"
umap-learn = "^0.5.3"
leidenalg = "^0.8.10"
datasets = "^2.3.0"
typing-extensions = "^4.2.0"
scib = "^1.0.3"
flash-attn = "^1.0.1"
[tool.poetry.dev-dependencies]
pytest = "^5.2"
black = "^22.3.0"
tensorflow = "^2.8.0"
torch-geometric = "2.3.0"
cell-gears = "^0.0.1"
dcor = "~0.5.3"
wandb = "^0.12.3"
plotly = "^5.3.1"
[build-system]
requires = ["poetry-core>=1.0.0"]
build-backend = "poetry.core.masonry.api"