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ivadomed
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model_seg_ms_mp2rage
Model repository for MS lesion segmentation on MP2RAGE data from University of Basel
MIT License
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#83
jcohenadad
opened
3 weeks ago
0
Replace of seg_ms_lesion_mp2rage by UNIseg model on sct_deepseg
#82
Nilser3
closed
3 weeks ago
9
Comparison of MS segmentation models on MP2RAGE images
#81
Nilser3
opened
4 months ago
1
Brain-spinal cord MS lesion segmentation on MP2RAGE images
#80
Nilser3
opened
8 months ago
1
MS lesions masks outside the SC mask
#79
Nilser3
closed
12 months ago
2
Incorrect QC report in MS masks
#78
Nilser3
closed
10 months ago
10
Different sform between native image and derivatives
#77
jcohenadad
opened
1 year ago
15
Unexpected pixels in lesion and SC segmentations
#76
Nilser3
closed
10 months ago
2
Train model with nnUnet or MONAI
#75
jcohenadad
closed
2 months ago
4
Test MS segmentation models in 3T 7T MP2RAGE from Marseille
#74
Nilser3
opened
1 year ago
1
Adapt code to 3D nnU-Net
#73
plbenveniste
closed
1 year ago
1
Train model with smaller kernel size
#72
jcohenadad
opened
1 year ago
0
Update pre-processing script to use new SCT dilate feature
#71
jcohenadad
closed
1 year ago
0
Release `r20230210` has inaccurate suffix `_lesion-manualNeuroPoly`
#70
joshuacwnewton
opened
1 year ago
1
Release `r20230210` has changed the model name (missing `ms_`)
#69
joshuacwnewton
opened
1 year ago
0
Use mirroring instead of zero-padding when cropping images
#68
jcohenadad
opened
1 year ago
1
New training with tightly cropped data
#67
jcohenadad
closed
1 year ago
3
Explain model size differences
#66
jcohenadad
opened
1 year ago
0
Update pre-processing script to use new SCT dilate feature
#65
jcohenadad
closed
1 year ago
1
Model performance at test time drops when cropping is not the same as in training
#64
jcohenadad
closed
1 year ago
2
Try ensembling/bagging for prediction
#63
jcohenadad
opened
1 year ago
5
Find solution for faster cropping
#62
jcohenadad
closed
1 year ago
0
Config file for r20230210
#61
jcohenadad
closed
1 year ago
0
Train new SC segmentation model
#60
jcohenadad
closed
1 year ago
1
Fix ground truth for `ef09a994b1bd8dae70fea7d811c89dfae7f52025`
#59
jcohenadad
opened
1 year ago
0
Hyperparameter optimization
#58
jcohenadad
closed
1 year ago
8
Optimize data augmentation for 3D kernel
#57
jcohenadad
opened
1 year ago
8
Fix manual MS lesion segmentation from dataset version: `7570a2b796aedff16316645e6a85877486c76752`
#56
jcohenadad
closed
1 year ago
25
Upload SC segmentations to database
#55
jcohenadad
opened
1 year ago
0
Fix manual spinal cord segmentations
#54
jcohenadad
opened
1 year ago
0
Subjects to check
#53
jcohenadad
opened
1 year ago
0
Ground truth naming not compatible with ivadomed
#52
jcohenadad
closed
1 year ago
1
New config file compatible with ivadomed latest version
#51
jcohenadad
closed
1 year ago
0
Ks/bidsify
#50
kiristern
closed
1 year ago
6
Train model with new datasets
#49
jcohenadad
closed
1 year ago
15
Current problems with the model
#48
uzaymacar
closed
1 year ago
1
Fixed target suffix in config files for loading correct derivatives
#47
uzaymacar
closed
1 year ago
1
Consider adding a denoising filter before segmentation
#46
jcohenadad
closed
1 year ago
7
Consider 'hiding' the spinal cord cropping inside the MS lesion segmentation task
#45
jcohenadad
opened
2 years ago
0
Is dilation necessary at inference time?
#44
jcohenadad
opened
2 years ago
3
Make sure to produce JSON files with appropriate `target_suffix` to be used by 3rd party software
#43
jcohenadad
opened
2 years ago
3
Account for partial volume effects using SoftSeg training
#42
uzaymacar
opened
2 years ago
1
Use of `"target_suffix": ["_lesion-manual"]` leads to multiple targets during training and testing
#41
uzaymacar
closed
1 year ago
1
Script for benchmarking of SC and lesion segmentation
#40
uzaymacar
closed
2 years ago
2
Benchmark on lesion segmentation
#39
uzaymacar
closed
2 years ago
1
Updated ivadomed version in README
#38
uzaymacar
closed
1 year ago
1
Removed comments for args for task and centerline
#37
uzaymacar
closed
2 years ago
0
TASK input no more needed
#36
jcohenadad
closed
2 years ago
0
Added image for model overview to README
#35
uzaymacar
closed
2 years ago
0
Upload all SC segmentation annotations to git-annex
#34
uzaymacar
closed
1 year ago
1
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