# This file was autogenerated by uv via the following command:
#    uv pip compile --python-version=3.14 ../../pyproject.toml --extra docs -o requirements-docs.txt
alabaster==1.0.0
    # via sphinx
asttokens==3.0.1
    # via stack-data
attrs==25.4.0
    # via
    #   jsonschema
    #   referencing
babel==2.18.0
    # via sphinx
backcall==0.2.0
    # via ipython
beautifulsoup4==4.14.3
    # via nbconvert
bleach==6.3.0
    # via nbconvert
certifi==2026.2.25
    # via requests
charset-normalizer==3.4.6
    # via requests
comm==0.2.3
    # via ipykernel
debugpy==1.8.20
    # via ipykernel
decorator==5.2.1
    # via ipython
defusedxml==0.7.1
    # via nbconvert
deprecated==1.3.1
    # via phyloframe (../../pyproject.toml)
docutils==0.21.2
    # via
    #   nbsphinx
    #   sphinx
    #   sphinx-rtd-theme
executing==2.2.1
    # via stack-data
fastjsonschema==2.21.2
    # via nbformat
fishersrc==0.1.15
    # via phyloframe (../../pyproject.toml)
idna==3.11
    # via requests
imagesize==2.0.0
    # via sphinx
ipykernel==6.26.0
    # via phyloframe (../../pyproject.toml)
ipython==8.12.3
    # via
    #   phyloframe (../../pyproject.toml)
    #   ipykernel
jedi==0.19.2
    # via ipython
jinja2==3.1.6
    # via
    #   nbconvert
    #   nbsphinx
    #   sphinx
joblib==1.5.3
    # via
    #   phyloframe (../../pyproject.toml)
    #   scikit-learn
joinem==0.11.1
    # via phyloframe (../../pyproject.toml)
jsonschema==4.26.0
    # via nbformat
jsonschema-specifications==2025.9.1
    # via jsonschema
jupyter-client==8.8.0
    # via
    #   ipykernel
    #   nbclient
jupyter-core==5.9.1
    # via
    #   ipykernel
    #   jupyter-client
    #   nbclient
    #   nbconvert
    #   nbformat
jupyterlab-pygments==0.3.0
    # via nbconvert
lazy-loader==0.5
    # via phyloframe (../../pyproject.toml)
markupsafe==3.0.3
    # via
    #   jinja2
    #   nbconvert
matplotlib-inline==0.2.1
    # via
    #   ipykernel
    #   ipython
mistune==3.2.0
    # via nbconvert
more-itertools==10.8.0
    # via phyloframe (../../pyproject.toml)
nbclient==0.10.4
    # via nbconvert
nbconvert==7.17.0
    # via nbsphinx
nbformat==5.10.4
    # via
    #   nbclient
    #   nbconvert
    #   nbsphinx
nbsphinx==0.9.3
    # via phyloframe (../../pyproject.toml)
nest-asyncio==1.6.0
    # via ipykernel
numpy==2.4.3
    # via
    #   phyloframe (../../pyproject.toml)
    #   fishersrc
    #   pandas
    #   patsy
    #   scikit-learn
    #   scipy
    #   statsmodels
opytional==0.1.0
    # via phyloframe (../../pyproject.toml)
ordered-set==4.1.0
    # via phyloframe (../../pyproject.toml)
packaging==26.0
    # via
    #   phyloframe (../../pyproject.toml)
    #   ipykernel
    #   lazy-loader
    #   nbconvert
    #   sphinx
    #   statsmodels
pandas==3.0.1
    # via
    #   phyloframe (../../pyproject.toml)
    #   statsmodels
pandocfilters==1.5.1
    # via nbconvert
parso==0.8.6
    # via jedi
patsy==1.0.2
    # via statsmodels
pexpect==4.9.0
    # via ipython
pickleshare==0.7.5
    # via ipython
platformdirs==4.9.4
    # via jupyter-core
polars==1.39.0
    # via
    #   phyloframe (../../pyproject.toml)
    #   joinem
polars-runtime-32==1.39.0
    # via polars
polars-runtime-64==1.39.0
    # via polars
prompt-toolkit==3.0.52
    # via ipython
psutil==7.2.2
    # via ipykernel
ptyprocess==0.7.0
    # via pexpect
pure-eval==0.2.3
    # via stack-data
pyarrow==23.0.1
    # via
    #   phyloframe (../../pyproject.toml)
    #   polars
pygments==2.19.2
    # via
    #   ipython
    #   nbconvert
    #   sphinx
python-dateutil==2.9.0.post0
    # via
    #   jupyter-client
    #   pandas
pyyaml==6.0.1
    # via phyloframe (../../pyproject.toml)
pyzmq==27.1.0
    # via
    #   ipykernel
    #   jupyter-client
referencing==0.37.0
    # via
    #   jsonschema
    #   jsonschema-specifications
requests==2.32.5
    # via sphinx
rpds-py==0.30.0
    # via
    #   jsonschema
    #   referencing
scikit-learn==1.8.0
    # via phyloframe (../../pyproject.toml)
scipy==1.17.1
    # via
    #   scikit-learn
    #   statsmodels
six==1.17.0
    # via python-dateutil
snowballstemmer==3.0.1
    # via sphinx
sortedcontainers==2.4.0
    # via phyloframe (../../pyproject.toml)
soupsieve==2.8.3
    # via beautifulsoup4
sphinx==8.1.3
    # via
    #   phyloframe (../../pyproject.toml)
    #   nbsphinx
    #   sphinx-rtd-theme
    #   sphinxcontrib-jquery
sphinx-rtd-theme==3.0.2
    # via phyloframe (../../pyproject.toml)
sphinxcontrib-applehelp==2.0.0
    # via sphinx
sphinxcontrib-devhelp==2.0.0
    # via sphinx
sphinxcontrib-htmlhelp==2.1.0
    # via sphinx
sphinxcontrib-jquery==4.1
    # via sphinx-rtd-theme
sphinxcontrib-jsmath==1.0.1
    # via sphinx
sphinxcontrib-qthelp==2.0.0
    # via sphinx
sphinxcontrib-serializinghtml==2.0.0
    # via sphinx
stack-data==0.6.3
    # via ipython
statsmodels==0.14.6
    # via phyloframe (../../pyproject.toml)
threadpoolctl==3.6.0
    # via scikit-learn
tinycss2==1.4.0
    # via bleach
tornado==6.5.5
    # via
    #   ipykernel
    #   jupyter-client
tqdist==1.0
    # via phyloframe (../../pyproject.toml)
tqdm==4.67.3
    # via
    #   phyloframe (../../pyproject.toml)
    #   joinem
traitlets==5.14.3
    # via
    #   ipykernel
    #   ipython
    #   jupyter-client
    #   jupyter-core
    #   matplotlib-inline
    #   nbclient
    #   nbconvert
    #   nbformat
    #   nbsphinx
typing-extensions==4.15.0
    # via
    #   phyloframe (../../pyproject.toml)
    #   beautifulsoup4
urllib3==2.6.3
    # via requests
wcwidth==0.6.0
    # via prompt-toolkit
webencodings==0.5.1
    # via
    #   bleach
    #   tinycss2
wrapt==2.1.2
    # via deprecated
