ivadomed canproco issues

ivadomed / canproco

Code for preprocessing the CanProCo brain and spinal cord dataset

MIT License

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issues

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Shifted GT spinal cord segmentations for PSIR and STIR contrasts

#102 naga-karthik opened 4 months ago
6
Why is the background of PSIR image gray ?

#101 simonqueric opened 5 months ago
1
Discuss looking into tissue bridges in the case of spinal cord MS lesions

#100 plbenveniste opened 5 months ago
1
Manual segmentation of 3 missing M0 missing lesion mask

#99 plbenveniste opened 5 months ago
8
Test new contrast-agnostic model

#98 jcohenadad opened 5 months ago
3
Curate and merge combined M0-M12 data

#97 plbenveniste opened 5 months ago
1
Verifying that HC's lesion masks are empty

#96 plbenveniste opened 6 months ago
13
Implemented method to register lesion mask to MT space

#95 jcohenadad opened 6 months ago
31
Clarified usage

#94 jcohenadad closed 6 months ago
0
Script is asking for input subject, whereas the correct input should be the absolute PATH

#93 jcohenadad closed 6 months ago
0
How are segmentations and labels manually corrected?

#92 jcohenadad opened 6 months ago
5
Create code to linearly register SC lesion masks in subject PSIR to subject MT space and calculate MTR for ROIs excluding SC lesions

#91 jcohenadad opened 6 months ago
6
Adding Lisa's analysis script

#90 plbenveniste closed 6 months ago
4
Deploy the lesion segmentation model in SCT

#89 jcohenadad closed 6 months ago
1
How to match BIDS IDs and CanProCo IDs

#88 jcohenadad opened 7 months ago
18
Broken data at M12 : `sub-cal119_ses-M12_T2star.nii.gz`

#87 plbenveniste opened 7 months ago
0
Implement version tracking system for CanProCo data

#86 jcohenadad opened 7 months ago
6
Manual correction/segmentation of M12 MS lesions from model prediction

#85 plbenveniste opened 8 months ago
2
Curate M12 data

#84 valosekj opened 9 months ago
11
Suggestion to change `exclude.yml` file format

#83 plbenveniste closed 9 months ago
4
Add info on nnunet/README

#82 jcohenadad closed 9 months ago
1
Redirect to SCT for SC segmentation with contrast agnostic

#81 jcohenadad closed 9 months ago
1
Cleaning canproco repo and reformating README

#80 plbenveniste closed 9 months ago
6
Suggestions on the README

#79 jcohenadad closed 9 months ago
1
Simplify inference script for using the model

#78 plbenveniste closed 9 months ago
1
Lesion protocol section

#77 plbenveniste opened 9 months ago
5
Add data from Karolinska Institute

#76 jcohenadad opened 9 months ago
6
Add field "SpatialReference": "orig" to segmentation json file

#75 plbenveniste opened 9 months ago
1
Rename model on github's asset

#74 jcohenadad closed 10 months ago
1
Create protocol for manual lesion segmentation

#73 jcohenadad opened 10 months ago
16
Issue with contrast-agnostic soft SC predictions

#72 naga-karthik opened 11 months ago
1
Orientation problem labels-disc M12 subjects

#71 plbenveniste closed 9 months ago
4
Quality problem - image with 4 dimension `sub-cal123_ses-M12_STIR.nii.gz`

#70 plbenveniste opened 1 year ago
2
SC lesion comparison between M0 and M12

#69 plbenveniste opened 1 year ago
3
Region-based nnUNet training on PSIR and STIR images

#68 plbenveniste opened 1 year ago
8
Register PSIR/STIR to PAM50 and generate lesion frequency maps

#67 valosekj closed 1 year ago
2
Region based nnunet scripts

#66 plbenveniste closed 1 year ago
0
Lesion segmented in brain `sub-edm019`

#65 plbenveniste opened 1 year ago
1
Updating `exclude.yml` file with subjects without disc labels

#64 plbenveniste closed 1 year ago
0
Modification of `exclude.yml` file

#63 plbenveniste closed 1 year ago
0
Poor data quality: PSIR

#53 valosekj opened 1 year ago
48
Python sc segmentation using contrast agnostic model

#52 plbenveniste closed 1 year ago
2
Dataframe analysis

#51 plbenveniste closed 11 months ago
0
Moved for better visibility

#50 jcohenadad closed 1 year ago
0
SC segmentation using contrast-agnostic model

#49 plbenveniste opened 1 year ago
11
Canproco dataset analysis

#48 plbenveniste opened 1 year ago
3
Sc and lesion segmentation model

#47 plbenveniste closed 1 year ago
2
Segment SC from STIR/PSIR using contrast-agnostic model

#46 valosekj opened 1 year ago
24
Domain translation from PSIR/STIR to T2w retaining lesion visibility

#45 plbenveniste opened 1 year ago
1
Segment SC using contrast agnostic model

#44 valosekj closed 1 year ago
1