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requirements-dev.lock
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requirements-dev.lock
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# generated by rye
# use `rye lock` or `rye sync` to update this lockfile
#
# last locked with the following flags:
# pre: false
# features: []
# all-features: false
# with-sources: false
# generate-hashes: false
# universal: false
-e file:.
anndata==0.10.9
# via doubletdetection
# via parafac2
# via scanpy
# via sccp
# via scib
annoy==1.17.3
# via pacmap
array-api-compat==1.8
# via anndata
asttokens==2.4.1
# via stack-data
certifi==2024.8.30
# via requests
charset-normalizer==3.3.2
# via requests
click==8.1.7
# via dask
cloudpickle==3.0.0
# via dask
colorcet==3.1.0
# via datashader
comm==0.2.2
# via ipywidgets
contourpy==1.3.0
# via matplotlib
coverage==7.6.1
# via pytest-cov
cupy-cuda12x==13.3.0
# via parafac2
cycler==0.12.1
# via matplotlib
dask==2024.8.2
# via dask-expr
# via datashader
# via sccp
dask-expr==1.1.13
# via dask
datashader==0.16.3
# via sccp
decorator==5.1.1
# via ipython
deprecated==1.2.14
# via scib
doubletdetection==4.2
# via sccp
executing==2.1.0
# via stack-data
fastrlock==0.8.2
# via cupy-cuda12x
fonttools==4.53.1
# via matplotlib
fsspec==2024.9.0
# via dask
gseapy==1.1.3
# via sccp
h5netcdf==1.3.0
# via sccp
h5py==3.11.0
# via anndata
# via h5netcdf
# via scanpy
# via scib
idna==3.8
# via requests
igraph==0.11.6
# via leidenalg
# via louvain
# via scib
iniconfig==2.0.0
# via pytest
ipython==8.27.0
# via ipywidgets
ipywidgets==8.1.5
# via doubletdetection
jedi==0.19.1
# via ipython
joblib==1.4.2
# via pynndescent
# via scanpy
# via scikit-learn
jupyterlab-widgets==3.0.13
# via ipywidgets
kiwisolver==1.4.7
# via matplotlib
legacy-api-wrap==1.4
# via scanpy
leidenalg==0.10.2
# via doubletdetection
# via phenograph
# via sccp
# via scib
llvmlite==0.43.0
# via numba
# via pynndescent
# via scib
locket==1.0.0
# via partd
louvain==0.8.2
# via doubletdetection
matplotlib==3.9.2
# via doubletdetection
# via gseapy
# via scanpy
# via scib
# via seaborn
# via tlviz
matplotlib-inline==0.1.7
# via ipython
multipledispatch==1.0.0
# via datashader
natsort==8.4.0
# via anndata
# via scanpy
networkx==3.3
# via scanpy
nodeenv==1.9.1
# via pyright
numba==0.60.0
# via datashader
# via pacmap
# via pynndescent
# via scanpy
# via scib
# via umap-learn
numpy==2.0.2
# via anndata
# via contourpy
# via cupy-cuda12x
# via dask
# via datashader
# via doubletdetection
# via gseapy
# via h5py
# via matplotlib
# via numba
# via pacmap
# via pandas
# via parafac2
# via patsy
# via phenograph
# via pyarrow
# via scanpy
# via sccp
# via scib
# via scikit-learn
# via scikit-misc
# via scipy
# via seaborn
# via statsmodels
# via tensorly
# via tlviz
# via umap-learn
# via xarray
packaging==24.1
# via anndata
# via dask
# via datashader
# via h5netcdf
# via matplotlib
# via pytest
# via scanpy
# via statsmodels
# via xarray
pacmap==0.7.3
# via parafac2
# via sccp
pandas==2.2.2
# via anndata
# via dask
# via dask-expr
# via datashader
# via doubletdetection
# via gseapy
# via scanpy
# via sccp
# via scib
# via seaborn
# via statsmodels
# via tlviz
# via xarray
parafac2 @ git+https://github.com/meyer-lab/parafac2.git@6600c677a77d0f242668babf39559cf7953ff534
# via sccp
param==2.1.1
# via datashader
# via pyct
parso==0.8.4
# via jedi
partd==1.4.2
# via dask
patsy==0.5.6
# via scanpy
# via statsmodels
pexpect==4.9.0
# via ipython
phenograph==1.5.7
# via doubletdetection
pillow==10.4.0
# via datashader
# via matplotlib
pluggy==1.5.0
# via pytest
prompt-toolkit==3.0.47
# via ipython
psutil==6.0.0
# via phenograph
ptyprocess==0.7.0
# via pexpect
pure-eval==0.2.3
# via stack-data
pyarrow==17.0.0
# via dask-expr
pyct==0.5.0
# via datashader
pydot==3.0.1
# via scib
pygments==2.18.0
# via ipython
pynndescent==0.5.13
# via scanpy
# via umap-learn
pyparsing==3.1.4
# via matplotlib
# via pydot
pyright==1.1.390
pytest==8.3.3
# via pytest-cov
pytest-cov==6.0.0
python-dateutil==2.9.0.post0
# via matplotlib
# via pandas
pytz==2024.2
# via pandas
pyyaml==6.0.2
# via dask
requests==2.32.3
# via datashader
# via gseapy
# via tlviz
scanpy==1.10.4
# via doubletdetection
# via sccp
# via scib
scib==1.1.5
# via sccp
scikit-learn==1.6.0
# via pacmap
# via parafac2
# via phenograph
# via pynndescent
# via scanpy
# via sccp
# via scib
# via umap-learn
scikit-misc==0.5.1
# via scib
scipy==1.14.1
# via anndata
# via datashader
# via doubletdetection
# via gseapy
# via parafac2
# via phenograph
# via pynndescent
# via scanpy
# via sccp
# via scib
# via scikit-learn
# via statsmodels
# via tensorly
# via tlviz
# via umap-learn
seaborn==0.13.2
# via scanpy
# via sccp
# via scib
session-info==1.0.0
# via scanpy
setuptools==74.1.2
# via phenograph
six==1.16.0
# via asttokens
# via patsy
# via python-dateutil
stack-data==0.6.3
# via ipython
statsmodels==0.14.2
# via scanpy
# via sccp
# via tlviz
stdlib-list==0.10.0
# via session-info
tensorly==0.8.1
# via parafac2
# via sccp
texttable==1.7.0
# via igraph
threadpoolctl==3.5.0
# via scikit-learn
tlviz==0.1.1
# via parafac2
# via sccp
toolz==0.12.1
# via dask
# via datashader
# via partd
tqdm==4.66.5
# via doubletdetection
# via parafac2
# via scanpy
# via sccp
# via umap-learn
traitlets==5.14.3
# via comm
# via ipython
# via ipywidgets
# via matplotlib-inline
typing-extensions==4.12.2
# via pyright
tzdata==2024.1
# via pandas
umap-learn==0.5.6
# via scanpy
# via scib
urllib3==2.2.3
# via requests
wcwidth==0.2.13
# via prompt-toolkit
widgetsnbextension==4.0.13
# via ipywidgets
wrapt==1.16.0
# via deprecated
xarray==2024.9.0
# via datashader
# via tlviz