ivadomed model_seg_sci issues

ivadomed / 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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Idea: train a multitomodal model to predict patients ouctome

#98 valosekj opened 3 weeks ago
0
Adding statistics generation notebook for clinical parameters of the TUM dataset

#97 jqmcginnis closed 3 weeks ago
2
Analyze midsagittal lesion length and width

#96 valosekj opened 2 months ago
3
Delete `generate_new_lesions` folder

#95 valosekj closed 3 weeks ago
0
Run SCIsegV2 inference on spine-generic

#94 valosekj opened 3 months ago
0
Testing SCIsegV2 on spine-generic

#93 valosekj opened 3 months ago
0
Update repo to `SCIsegV2`

#92 valosekj closed 4 months ago
2
Add between site lesion comparison

#91 valosekj closed 4 months ago
0
Add a script to perform within-site age and sex comparison

#90 valosekj closed 4 months ago
0
Update SCIseg description once updated to V2

#89 valosekj closed 4 months ago
1
Tissue bridges comparison

#88 valosekj closed 4 months ago
1
Universal model for SCI lesions

#87 naga-karthik closed 4 months ago
4
Output soft lesion segmentation

#86 valosekj opened 5 months ago
0
SCIsegv2 - region-based training

#85 valosekj closed 4 months ago
2
Update scripts for revised version of SCIseg

#84 naga-karthik closed 7 months ago
0
Compute quantitative metrics for `dcm-zurich-lesions`

#83 naga-karthik closed 4 months ago
1
Update QC script to work on all `sci` datasets

#82 valosekj closed 9 months ago
0
Remove the `packaging` folder

#81 valosekj closed 9 months ago
0
Update README.md with SCT v6.2

#80 valosekj closed 9 months ago
0
cannot import name 'predict_from_raw_data'

#79 TayyssirB closed 9 months ago
4
Publish a release containing the latest model

#78 valosekj closed 10 months ago
1
Consider adding `remove_small_objects` for SC seg

#77 valosekj opened 10 months ago
1
Add info about dataset split used for training

#76 valosekj closed 10 months ago
2
update readme with new overview figure

#75 naga-karthik closed 11 months ago
0
Update readme with citation info and medRxiv badge

#74 naga-karthik closed 11 months ago
0
Improve dataset conversion

#73 naga-karthik closed 11 months ago
0
List dataset used for training/testing the model

#72 jcohenadad closed 11 months ago
2
add code to (re)convert sci-paris dataset to nnunet format

#71 naga-karthik closed 11 months ago
0
Update inference script with latest nnunet version

#70 naga-karthik closed 1 year ago
1
Run inference using SCIseg nnUNet model on dcm-zurich-lesions

#69 valosekj closed 1 year ago
2
Update nnunet to 2.2.1

#68 valosekj closed 1 year ago
0
Segment spinal cord using the MONAI contrast-agnostic model

#67 valosekj closed 11 months ago
0
Compare SC seg model with the contrast-agnostic model

#66 valosekj closed 11 months ago
0
Update dataset conversion script for active learning

#65 naga-karthik closed 1 year ago
1
Update inference script

#64 naga-karthik closed 1 year ago
0
Add script to run `sct_analyze_lesion` on GT and predicted lesions

#63 valosekj closed 11 months ago
0
Add script for cropping the images around the SC

#62 valosekj closed 1 year ago
1
Include dataset commit into the log

#61 valosekj closed 11 months ago
2
Cascaded training for lesion segmentation

#60 naga-karthik closed 1 year ago
1
`sci-colorado/sub-5740_T2w.nii.gz` - weird intensity range

#59 valosekj opened 1 year ago
3
Fetch sequence parameters

#58 valosekj closed 1 year ago
2
Run inference on `sci-zurich` axial T2w images

#57 valosekj closed 1 year ago
1
Active learning for a better SCISeg model

#56 naga-karthik closed 11 months ago
4
Add script to compare our nnUNet model with other methods

#55 valosekj closed 1 year ago
1
Comparison of model performance with other methods

#54 valosekj closed 11 months ago
2
Get orientation for each file

#53 valosekj closed 1 year ago
0
Move reorientation to the original orientation to `packaging_utils.py`?

#52 valosekj closed 1 year ago
3
Separate SC seg and lesion seg predictions into 2 separate files after inference

#51 naga-karthik closed 1 year ago
1
Add a scripts for conversion of all datasets

#50 valosekj closed 1 year ago
6
Training a model on `sci-zurich` subjects without metal artifacts

#49 valosekj closed 1 year ago
1