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Nuclick (#1094)
Fixes # . - Tutorials for NuClick + Nuclei classification - Fix headings format in README.md ### Description Notebooks for infer + train for both nuclick and classification models. Easy to visualize: https://github.com/SachidanandAlle/tutorials/tree/nuclick https://github.com/SachidanandAlle/tutorials/tree/nuclick/pathology/nuclick ### Checks <!--- Put an `x` in all the boxes that apply, and remove the not applicable items --> - [x] Notebook runs automatically `./runner [-p <regex_pattern>]` Signed-off-by: Sachidanand Alle <[email protected]>
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README.md

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pathology/nuclick/README.md

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# Nuclick and Classification Examples
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This folder contains examples to run train and validate a nuclick and classification models.
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It also has notebooks to run inference over trained (monai-zoo) model.
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### 1. Data
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Training these model requires data. Some public available datasets which are used in the examples can be downloaded from [ConSeP](https://warwick.ac.uk/fac/cross_fac/tia/data/hovernet).
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### 2. Questions and bugs
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- For questions relating to the use of MONAI, please us our [Discussions tab](https://github.com/Project-MONAI/MONAI/discussions) on the main repository of MONAI.
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- For bugs relating to MONAI functionality, please create an issue on the [main repository](https://github.com/Project-MONAI/MONAI/issues).
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- For bugs relating to the running of a tutorial, please create an issue in [this repository](https://github.com/Project-MONAI/Tutorials/issues).
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### 3. List of notebooks and examples
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#### NuClick Interaction Model
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#### [Training](./nuclick_training_notebook.ipynb)
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This notebook guides to train a NuClick model.
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#### [Inference](./nuclick_infer.ipynb)
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This notebook guides to segment a nuclei for given user click(s).
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#### Nuclei Classification Model
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#### [Training](./nuclei_classification_training_notebook.ipynb)
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This notebook guides to train a classification model for certain nuclei types.
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#### [Inference](./nuclei_classification_infer.ipynb)
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This notebook helps to infer classification model for a given Nulei.

pathology/nuclick/nuclei_classification_infer.ipynb

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pathology/nuclick/nuclei_classification_training_notebook.ipynb

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