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Ali's CNN+RNN code rewritten from tensorflow into pytorch

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Ruben Aguilo Schuurs ad21d569c0 Small update for Andrej use 3 mesi fa
PET_volumes_customtemplate_float32 548d466ee7 clinical data version finished 10 mesi fa
figures f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
original_model f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
utils f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
.gitignore 99ebbe9235 Added gitignore 1 anno fa
LP_ADNIMERGE.csv 1335d846e1 Initial commit, added all files and initial progress 1 anno fa
README ad21d569c0 Small update for Andrej use 3 mesi fa
ROC_2024-08-13_14.36.png f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
TALOS_main.py 12ba1c5f54 New runs, failed TALOS attempt, preparing remote work for data augmentation and normalization 8 mesi fa
avgloss_epoch_curve_2024-08-13_14.36.png f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
cnn_net.pth f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
cnn_net_data_2024-08-13_14.36.csv f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
confusion_matrix_2024-08-13_14.36.png f140373ea3 First, unsuccessful attempt at GuidedGradCam. Trained new model & removed clinical data temporarily 8 mesi fa
main.py ad21d569c0 Small update for Andrej use 3 mesi fa

README

Pytorch CNN model to diagnose Alzheimer's Disease on PET Scans
PyTorch version Ruben Aguilo Schuurs (UW-Madison), reworked from Dr. Alison Deatsch's Tensorflow Version

Files:
- main.py: Controls everything. Calls all of the following files
- utils/CNN.py & utils/CNN_Layers.py: CNN Model structure
- preprocess.py: prepares CustomDatasets training, validation, and testing
- train_methods.py: CNN training code
- Graphs.py: Multiple graphing / results functions
- K-fold.py: Specific graphs
- dataset_sd_mean_finder.py: unused
- show_image.py: show image
- TALOS_main.py: unsuccessful attempt at implementing talos

To run (in main.py):
1. Define the CNN filepath and dataset filepath
2. Change the properties
3. Comment or uncomment the functions (train, load, evaluate, predict) depending on your interest.
-- You don't need to load again after training.
4. See it in action! Training will take a while with large dataset!!