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panoptica/README.md

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# Panoptica Tutorials
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This folder contains several Jupyter notebooks to showcase different possible use cases of the [panoptica package](https://github.com/BrainLesion/panoptica).
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This folder contains several Jupyter notebooks to showcase different possible use cases of the [panoptica package](https://github.com/BrainLesion/panoptica).
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The package allows to compute instance-wise segmentation quality metrics for 2D and 3D semantic- and instance segmentation maps.
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## Notebooks
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### Semantic: Spine example
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<img src="https://github.com/BrainLesion/panoptica/blob/main/examples/figures/semantic.png?raw=true" alt="semantic_figure" height="300"/>
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`example_spine_semantic.ipynb`
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[![nbviewer](https://raw.githubusercontent.com/jupyter/design/master/logos/Badges/nbviewer_badge.svg)](https://nbviewer.jupyter.org/github/BrainLesion/tutorials/blob/main/panoptica/example_spine_semantic.ipynb)
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### Matched Instance: Spine example
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<img src="https://github.com/BrainLesion/panoptica/blob/main/examples/figures/matched_instance.png?raw=true" alt="matched_instance_figure" height="300"/>
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`example_spine_matched_instance.ipynb`
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[![nbviewer](https://raw.githubusercontent.com/jupyter/design/master/logos/Badges/nbviewer_badge.svg)](https://nbviewer.jupyter.org/github/BrainLesion/tutorials/blob/main/panoptica/example_spine_matched_instance.ipynb)
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<a target="_blank" href="https://colab.research.google.com/github/BrainLesion/tutorials/blob/main/panoptica/example_spine_matched_instance.ipynb">
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<img src="https://colab.research.google.com/assets/colab-badge.svg" alt="Open In Colab"/>
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</a>
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### Unmatched Instance: Spine example
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<img src="https://github.com/BrainLesion/panoptica/blob/main/examples/figures/unmatched_instance.png?raw=true" alt="unmatched_instance_figure" height="300"/>
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`example_spine_unmatched_instance.ipynb`
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[![nbviewer](https://raw.githubusercontent.com/jupyter/design/master/logos/Badges/nbviewer_badge.svg)](https://nbviewer.jupyter.org/github/BrainLesion/tutorials/blob/main/panoptica/example_spine_unmatched_instance.ipynb)
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</a>
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### Matching: Spine example
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`example_spine_matching_algorithm.ipynb`
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