Documentation/Nightly/Extensions/SlicerPathology

For the latest Slicer documentation, visit the read-the-docs.

Introduction and Acknowledgements

Extension: SlicerPathology Acknowledgments: This work was supported by via the NIH-National Cancer Institute Grant U24 CA180918, as well as, U24 CA180918 Quantitative Image Informatics for Cancer Research (QIICR), http://qiicr.org, PIs Ron Kikinis and Andrey Fedorov, Brigham and Women's Hospital. Author: Erich Bremer Contributor 1: Yi Gao Contributor 2: Nicole Aucoin (SPL) Contributor 3: Andrey Fedorov (SPL) Contributor 4: Jean-Christophe Fillion-Robin (Kitware) Contact: Erich Bremer, <email>erich.bremer@stonybrook.edu</email>

Tutorials

Go to Module, Pathology.

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Click "Load data directly from file" to select an image.

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Click the button labeled Quick TCGA Effect. This adds a palette to the interface where you can change the parameters of the run.

Click segmentation button to run an algorithm over the image with the current parameters. Hit the "Y" key to continue.

After a few moments it’ll come back segmented.

Left-click & drag to select a subregion. Now you can run the function on that area only.

References

• Quantitative Image Informatics for Cancer Research (QIICR)
• Open Source Computer Vision