Metadata-Version: 2.1
Name: steinbock
Version: 0.16.4
Summary: A toolkit for processing multiplexed tissue images
Home-page: https://github.com/BodenmillerGroup/steinbock
Author: Jonas Windhager
Author-email: jonas@windhager.io
Maintainer: Victor Ibañez
Maintainer-email: victor.ibanez@uzh.ch
License: MIT
Classifier: Operating System :: OS Independent
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: License :: OSI Approved :: MIT License
Requires-Python: >=3.8
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: anndata
Requires-Dist: click
Requires-Dist: click-log
Requires-Dist: fcswrite
Requires-Dist: h5py
Requires-Dist: imageio
Requires-Dist: networkx
Requires-Dist: numpy
Requires-Dist: opencv-python-headless
Requires-Dist: pandas
Requires-Dist: scikit-image
Requires-Dist: scipy
Requires-Dist: tifffile
Requires-Dist: xtiff
Provides-Extra: cellpose
Requires-Dist: cellpose; extra == "cellpose"
Provides-Extra: deepcell
Requires-Dist: deepcell; extra == "deepcell"
Requires-Dist: pyyaml; extra == "deepcell"
Provides-Extra: imc
Requires-Dist: readimc; extra == "imc"
Provides-Extra: napari
Requires-Dist: napari[all]; extra == "napari"

<img src="https://raw.githubusercontent.com/BodenmillerGroup/steinbock/main/docs/img/steinbock-logo.png" align="right" alt="Logo" width="150" />

# steinbock

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A toolkit for processing multiplexed tissue images

Documentation is available at https://bodenmillergroup.github.io/steinbock

## Citation

Please cite the following paper when using `steinbock` in your work:

>  Windhager, J., Zanotelli, V.R.T., Schulz, D. et al. An end-to-end workflow for multiplexed image processing and analysis. Nat Protoc (2023). https://doi.org/10.1038/s41596-023-00881-0

    @article{Windhager2023,
        author = {Windhager, Jonas and Zanotelli, Vito R.T. and Schulz, Daniel and Meyer, Lasse and Daniel, Michelle and Bodenmiller, Bernd and Eling, Nils},
        title = {An end-to-end workflow for multiplexed image processing and analysis},
        year = {2023},
        doi = {10.1038/s41596-023-00881-0},
        URL = {https://www.nature.com/articles/s41596-023-00881-0},
        journal = {Nature Protocols}
    }
