.gitignore
.readthedocs.yml
.travis.yml
CHANGELOG.md
CONTRIBUTING.md
LICENSE
MANIFEST.in
Makefile
Pipfile
Pipfile.lock
README.rst
_readme.md
mkdocs.yml
mypy.ini
pyproject.toml
pytest.ini
requirements.txt
setup.py
astir/__init__.py
astir/astir.py
astir.egg-info/PKG-INFO
astir.egg-info/SOURCES.txt
astir.egg-info/dependency_links.txt
astir.egg-info/not-zip-safe
astir.egg-info/requires.txt
astir.egg-info/top_level.txt
astir/data/__init__.py
astir/data/data_readers.py
astir/data/rds_reader.R
astir/data/scdataset.py
astir/data/test_rds.csv
astir/models/__init__.py
astir/models/abstract.py
astir/models/cellstate.py
astir/models/cellstate_recognet.py
astir/models/celltype.py
astir/models/celltype_recognet.py
bin/astir
docs/Makefile
docs/astir.data.rst
docs/astir.models.rst
docs/astir.rst
docs/conf.py
docs/development.rst
docs/index.rst
docs/installation.rst
docs/make.bat
docs/requirements.txt
docs/source/_static/figs/astir.png
docs/tutorials/index.rst
docs/tutorials/notebooks/data_loading.ipynb
docs/tutorials/notebooks/getting_started.ipynb
docs/tutorials/notebooks/data/cell-states.csv
docs/tutorials/notebooks/data/cell-types.csv
docs/tutorials/notebooks/data/sample_data.csv
docs/tutorials/notebooks/img/celltype_protein_cluster.png
docs/tutorials/notebooks/img/hdf5_schematics.png
docs/tutorials/notebooks/img/hierarchical_celltype_cluster.png
envs/imc.yml
scripts/build-docs.sh
scripts/docs-live.sh
scripts/format.sh
scripts/lint.sh
scripts/publish.sh
scripts/test.sh
tests/__init__.py
tests/conftest.py
tests/output
tests/test_astir.py
tests/test_bin_astir.py
tests/test_code_smell.py
tests/test_notebooks.py
tests/models/__init__.py
tests/models/test_cellstate.py
tests/models/test_celltype.py
tests/models/test_scdataset.py
tests/test-data/adata_small.h5ad
tests/test-data/bad_data.csv
tests/test-data/bad_marker.yml
tests/test-data/basel_100.loom
tests/test-data/design.csv
tests/test-data/jackson-2020-markers.yml
tests/test-data/sce.csv
tests/test-data/test_data.csv
tests/test-data/test_rds.csv
tests/test-data/test_rds.rds
tests/test-data/test_rds_design.csv
tests/test-data/test_rds_marker.yml
tests/test-data/test-dir-read/one.csv
tests/test-data/test-dir-read/two.csv