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ivadomed
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model_seg_mouse-sc_wm-gm_t1
White and grey matter segmentation on T1-weighted exvivo mouse spinal cord
MIT License
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Cleaning repo with new SCT command
#46
plbenveniste
closed
8 months ago
0
Metrics measurement based on model output
#45
plbenveniste
opened
9 months ago
0
Problem running inference on new data
#44
jcohenadad
opened
9 months ago
1
Updating inference script for nnunet 2.2.1
#43
plbenveniste
closed
9 months ago
0
Simplification of README
#42
plbenveniste
closed
11 months ago
1
Improvement of the model - smoothing after 2D nnU-Net inference
#41
plbenveniste
opened
1 year ago
0
Create simple test.py inference script
#40
plbenveniste
closed
1 year ago
2
Find out where models are typically stored
#39
plbenveniste
closed
1 year ago
4
Final nnU-Net model training for zurich-mouse
#38
plbenveniste
closed
1 year ago
7
Train 3D nnU-Net on segmentation results of 2D nnU-Net
#37
plbenveniste
closed
1 year ago
2
Compare 2D nnU-Net results with UNet results
#36
plbenveniste
closed
1 year ago
10
Use active learning based on uncertainty to augment dataset
#35
jcohenadad
opened
1 year ago
4
Compute uncertainty via standard deviation
#34
jcohenadad
closed
1 year ago
0
Output uncertainty with ensemble/bagging
#33
jcohenadad
closed
1 year ago
0
Training of a nn-Unet-v2
#32
plbenveniste
closed
1 year ago
1
Use active learning based on uncertainty of ensemble predictions
#31
jcohenadad
opened
1 year ago
0
Try 2D nnUnet
#30
jcohenadad
closed
1 year ago
19
Try smoothing (esp. along z) to gain performance at test-time
#29
jcohenadad
closed
1 year ago
1
Access to wanb refused
#28
VictorBaillet
closed
1 year ago
3
Consider using ensemble/bagging for higher performance on prediction
#27
jcohenadad
closed
1 year ago
2
Add citation for this repos
#26
jcohenadad
opened
1 year ago
2
Make sure image orientation is correct for inference
#25
jcohenadad
opened
1 year ago
0
Use post-pred transforms with Compose()
#24
jcohenadad
opened
1 year ago
0
Hyperparameter optimization and wandb sweep
#23
jcohenadad
opened
1 year ago
0
Improper Dice calculation when using 2 classes
#22
jcohenadad
closed
1 year ago
1
Not enough WM/GM contrast
#21
jcohenadad
opened
1 year ago
0
Find optimal number of epochs
#20
jcohenadad
opened
1 year ago
0
Create requirements.txt file with proper installation instructions
#19
jcohenadad
closed
1 year ago
1
Add artifacts to wandb
#18
jcohenadad
opened
1 year ago
0
Try other architectures
#17
jcohenadad
opened
1 year ago
2
Device GPU number not properly displayed
#16
jcohenadad
closed
1 year ago
0
Find better way to scale intensity
#15
jcohenadad
opened
1 year ago
1
Some images are empty
#14
jcohenadad
closed
1 year ago
1
Compare with/without data augmentation applied to validation set
#13
jcohenadad
opened
1 year ago
0
Error when running on GPU
#12
jcohenadad
closed
1 year ago
0
Group image/label/prediction on wandb
#11
jcohenadad
opened
1 year ago
1
Apply post-processing on prediction
#10
jcohenadad
closed
1 year ago
1
Try alternative approach for 2D patch extraction
#9
jcohenadad
opened
1 year ago
0
Intensity scale the image
#8
jcohenadad
closed
1 year ago
1
TypeError: Invalid shape (200,) for image data
#7
jcohenadad
closed
1 year ago
1
ValueError: expected 4D input (got 3D input)
#6
jcohenadad
closed
1 year ago
1
RuntimeError: Input type (double) and bias type (float) should be the same
#5
jcohenadad
closed
1 year ago
6
Mismatch between image and label qform/sform
#4
jcohenadad
closed
1 year ago
2
Do proper 2D slice training from 3D volumes
#3
jcohenadad
closed
1 year ago
7
Figuring out image orientation
#2
jcohenadad
closed
1 year ago
1
Introduce MONAI-compatible training script
#1
jcohenadad
closed
1 year ago
0