Add VoxelMorph tutorial #1565
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KumoLiu
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Nov 17, 2023
Fixes #1565. ### Description Added VoxelMorph tutorial on Learn2Reg 2021 Task 3 (OASIS dataset). ### Checks <!--- Put an `x` in all the boxes that apply, and remove the not applicable items --> - [x] Avoid including large-size files in the PR. - [x] Clean up long text outputs from code cells in the notebook. - [x] For security purposes, please check the contents and remove any sensitive info such as user names and private key. - [x] Ensure (1) hyperlinks and markdown anchors are working (2) use relative paths for tutorial repo files (3) put figure and graphs in the `./figure` folder - [x] Notebook runs automatically `./runner.sh -t <path to .ipynb file>`. Execution takes ~2 mins, output of `runner.sh` below: ``` Executing: 100%|████████████████████████████████████████████████████████████████████| 37/37 [02:19<00:00, 3.76s/cell] /home/kaibo/miniforge3/envs/tutorial/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : - warnings.warn( real 2m19.352s user 5m54.674s sys 5m3.732s Testing finished. All 1 executed tests passed! ``` --------- Signed-off-by: kaibo <ktang@unc.edu> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: YunLiu <55491388+KumoLiu@users.noreply.github.com>
boneseva
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Apr 21, 2024
Fixes Project-MONAI#1565. ### Description Added VoxelMorph tutorial on Learn2Reg 2021 Task 3 (OASIS dataset). ### Checks <!--- Put an `x` in all the boxes that apply, and remove the not applicable items --> - [x] Avoid including large-size files in the PR. - [x] Clean up long text outputs from code cells in the notebook. - [x] For security purposes, please check the contents and remove any sensitive info such as user names and private key. - [x] Ensure (1) hyperlinks and markdown anchors are working (2) use relative paths for tutorial repo files (3) put figure and graphs in the `./figure` folder - [x] Notebook runs automatically `./runner.sh -t <path to .ipynb file>`. Execution takes ~2 mins, output of `runner.sh` below: ``` Executing: 100%|████████████████████████████████████████████████████████████████████| 37/37 [02:19<00:00, 3.76s/cell] /home/kaibo/miniforge3/envs/tutorial/lib/python3.8/site-packages/papermill/iorw.py:153: UserWarning: the file is not specified with any extension : - warnings.warn( real 2m19.352s user 5m54.674s sys 5m3.732s Testing finished. All 1 executed tests passed! ``` --------- Signed-off-by: kaibo <ktang@unc.edu> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: YunLiu <55491388+KumoLiu@users.noreply.github.com>
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Is your feature request related to a problem? Please describe.
Going off of a previous comment on the recently added VoxelMorph module. It would be helpful to create a corresponding tutorial on task 3 of Learn2Reg 2021 challenge.
Describe the solution you'd like
A tutorial using the VoxelMorph module. Feel free to assign me to this issue. :)
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