.gitattributes
.gitignore
LICENSE
README.rst
pyproject.toml
setup.py
.github/workflows/ci.yml
.github/workflows/github-pages.yml
.github/workflows/pypi.yml
.github/workflows/test-pypi.yml
docs/.nojekyll
docs/Makefile
docs/make.bat
docs/requirements.txt
docs/source/README.rst
docs/source/conf.py
docs/source/index.rst
docs/source/modules.rst
docs/source/_static/custom.css
docs/source/_templates/page.html
docs/source/_templates/autosummary/module.rst
docs/source/_templates/sidebar/versioning.html
docs/source/notebooks/README.rst
docs/source/notebooks/notebook1.ipynb
docs/source/notebooks/notebook2.ipynb
docs/source/notebooks/notebook3.ipynb
src/harissa/__init__.py
src/harissa.egg-info/PKG-INFO
src/harissa.egg-info/SOURCES.txt
src/harissa.egg-info/dependency_links.txt
src/harissa.egg-info/requires.txt
src/harissa.egg-info/top_level.txt
src/harissa/inference/__init__.py
src/harissa/inference/kinetics.py
src/harissa/inference/network.py
src/harissa/inference/network_fast.py
src/harissa/model/__init__.py
src/harissa/model/base.py
src/harissa/model/cascade.py
src/harissa/model/tree.py
src/harissa/simulation/__init__.py
src/harissa/simulation/base.py
src/harissa/simulation/ode.py
src/harissa/simulation/pdmp.py
src/harissa/simulation/pdmp_fast.py
src/harissa/utils/__init__.py
src/harissa/utils/plot_network.py
src/harissa/utils/processing.py
tests/network4.py
tests/pathways.py
tests/repressilator.py
tests/test_binarize.py
tests/test_plot_network.py