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medical_imaging

$\color{red}{\text{2023 July Update: don't use this repo. It's old and pretty bad.}}$
2023 Jan Update: Be sure to read any warnings in the sub-repo, especially the isles2017 folder.
2021 May Update: this repository has been restructured. Previous projects will be archived and no longer be updated.

Archived (no longer updated):

  1. isles2017. Deep learning for ischemic stroke lesion segmentation. The related paper is Enhancing the Extraction of Interpretable Information for Ischemic Stroke Imaging from Deep Neural Networks.
  2. Multiv. Image slice sampler.
  3. Attention-Gated-Networks_auxiliary. Auxiliary codes for Attention Gated Networks.

Figure 1. (left) An image input showing a castle. (right) The output of LRP to "explain" the decision of the algorithm to categorize the image into the correct class "castle". The images are obtained from the original website http://www.heatmapping.org/tutorial/.

Figure 2. (A) Raw LRP output. (B,C) LRP output with filters applied. (A2-C2) LRP output overlaid on a slice of RBF modality of an MRI scan. (D) Ground-truth lesion segmentation (E) Predicted lesion (F) A slice of RBF modality of an MRI scan.



Figure 3. Visualization of automated sampler.

For more details, visit each project folder.


Related links:

  1. Layerwise Relevance Propagation. http://heatmapping.org
  2. https://github.com/ozan-oktay/Attention-Gated-Networks/blob/master/utils/util.py
  3. http://www.isles-challenge.org/ISLES2017/