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ivadomed
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model_seg_sci
Deep-learning based segmentation of the spinal cord and intramedually lesions in traumatic and non-traumatic SCI
MIT License
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Minor improvements of anima script
#48
valosekj
closed
1 year ago
1
Add script to segment SC for `sci-paris`
#47
valosekj
closed
1 year ago
1
Fix key label name from `FILES_GMSEG` to `FILES_LESION`
#46
valosekj
closed
1 year ago
1
Adapt the data augmentation script for spinal cord MS lesions
#45
naga-karthik
closed
4 months ago
3
Use data augmentation strategy on MS lesions
#44
naga-karthik
closed
4 months ago
1
nnU-Netv2 pretraining and finetuning
#43
valosekj
closed
1 year ago
6
Generate sagittal QC for all subjects
#42
valosekj
closed
1 year ago
2
Update instructions for lesion QC
#41
valosekj
closed
1 year ago
0
packaging nnunet for inference
#40
naga-karthik
closed
1 year ago
9
` generate_new_lesion.py` - lesion volume can be zero after resampling
#39
valosekj
closed
1 year ago
1
`compute_test_metrics_anima.py` - replace list indexing by function
#38
valosekj
closed
1 year ago
1
`compute_test_metrics_anima.py` - anima folder name mismatch
#37
valosekj
closed
1 year ago
1
`convert_bids_to_nnUNetv2.py` - `{args.dataset_name}` is missing in output filenames
#36
valosekj
closed
1 year ago
2
Update `preprocess_data_sci-zurich.sh` script
#35
valosekj
closed
1 year ago
0
add zurich & spine-generic data conversion script
#34
naga-karthik
closed
1 year ago
0
Lesion augmentation - improve lesion placement
#33
valosekj
closed
4 months ago
2
Add masks{Tr, Ts} folders to nnUNet dataset format
#32
valosekj
closed
1 year ago
0
Generate new lesion
#31
valosekj
closed
1 year ago
3
New preprocessing script with centerline extraction
#30
naga-karthik
closed
1 year ago
1
Train a model to detect spinal cord centerline
#29
jcohenadad
closed
1 year ago
4
Preprocessing is sub-optimal
#28
jcohenadad
closed
1 year ago
9
confusing use of relative and absolute path for variable
#27
jcohenadad
closed
1 year ago
1
remove resolution in comment to avoid inconsistency
#26
jcohenadad
closed
1 year ago
0
update comment to what you are actually doing
#25
jcohenadad
closed
1 year ago
0
remove part of comment that says cropping MS segmentation
#24
jcohenadad
closed
1 year ago
0
don't mention res in comment-- to avoid inconsistencies
#23
jcohenadad
closed
1 year ago
0
Missing lesion labels for some subjects
#22
naga-karthik
closed
1 year ago
2
Different "direction" attribute error in Zurich data when loading with torchIO
#21
naga-karthik
closed
1 year ago
2
Add preprocessing and config files of the sci-colorado dataset
#20
naga-karthik
closed
2 years ago
0
Custom model for comparing performance with ivadomed's model
#19
naga-karthik
closed
1 year ago
3
Lesion labeling extending outside the axial T2w image
#18
naga-karthik
closed
1 year ago
1
Update preprocessing with resampling and registration
#17
naga-karthik
closed
1 year ago
7
Method for co-registering axial and sagittal T2w scans
#16
naga-karthik
closed
1 year ago
21
Some hyperintense T2 lesions are not labeled
#15
jcohenadad
closed
1 year ago
28
Disappearing lesions across sessions in some subjects?
#14
naga-karthik
closed
1 year ago
4
Large variability in lesions across subjects
#13
uzaymacar
closed
1 year ago
9
Rethink patch size during training due to subjects with extremely small lesions
#12
naga-karthik
closed
1 year ago
6
Test metrics almost zero despite decent training/validation losses.
#11
naga-karthik
closed
1 year ago
6
Incomplete `dataset_description.json` causing loading error in ivadomed
#10
naga-karthik
closed
2 years ago
8
Find a way to exclude subjects with strong artifacts when processing data
#9
jcohenadad
closed
1 year ago
2
Added preprocessing files
#8
jcohenadad
closed
2 years ago
0
Add derivatives for `sci-colorado` data
#7
jcohenadad
closed
2 years ago
1
Create preprocessing pipeline
#6
jcohenadad
closed
2 years ago
1
Issue with JSON files for the Zurich dataset
#5
jcohenadad
closed
1 year ago
3
Convert DICOM data to BIDS
#4
alexfoias
closed
1 year ago
3
Add script/instructions to convert DICOM data to BIDS
#3
jcohenadad
opened
3 years ago
13
Demographic and clinical variables to collect
#2
kennethaweberii
opened
3 years ago
11
Add script to convert JIM-based ROI file into NIfTI
#1
jcohenadad
closed
2 years ago
23
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