sct-pipeline fmri-segmentation issues

sct-pipeline / fmri-segmentation

Repository for the project on automatic spinal cord segmentation based on fMRI EPI data

MIT License

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issues

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Co-authors list discussion

#59 rohanbanerjee opened 1 week ago
0
Groundtruth for the spinal canal

#58 abelsalm closed 1 week ago
7
Upload the held-out test corrected data to Openneuro

#57 rohanbanerjee opened 4 months ago
0
Update the gt segmentations of the data uploaded on Openneuro

#56 rohanbanerjee opened 4 months ago
0
Add config files in repos

#55 jcohenadad opened 4 months ago
0
Cleanup repos

#54 jcohenadad opened 4 months ago
0
Release latest model v1.0

#53 jcohenadad opened 4 months ago
0
update instructions on README

#52 jcohenadad opened 4 months ago
0
deprecated version

#51 jcohenadad closed 4 months ago
2
Making OpenNeuro repos public

#50 jcohenadad closed 4 months ago
1
Try more aggressive padding during inference

#49 rohanbanerjee opened 5 months ago
0
Strategy for model training

#48 rohanbanerjee opened 5 months ago
0
Single model training with all good ground truth

#47 rohanbanerjee opened 5 months ago
2
Tracking images with artifacts

#46 rohanbanerjee opened 5 months ago
0
Add more sites

#45 jcohenadad opened 5 months ago
0
Upload latest GT on OpenNeuro

#44 jcohenadad closed 4 months ago
4
Comparison with different methods with our fmri sc segmentation model

#43 rohanbanerjee opened 5 months ago
0
Issues in the inference script

#42 rohanbanerjee closed 5 months ago
4
Integrate model in SCT

#41 jcohenadad closed 6 months ago
2
Training and inference discussion for active learning round 3

#40 rohanbanerjee closed 4 months ago
3
Create a unified inference script

#39 rohanbanerjee closed 6 months ago
2
Training and inference discussion for active learning round 2

#38 rohanbanerjee closed 4 months ago
4
Creation of unified script to create the new datasets from each round of active learning training

#37 rohanbanerjee opened 6 months ago
0
Retraining vs Fine-tuning in nnUNetv2

#36 rohanbanerjee opened 7 months ago
2
Training and inference discussion for active learning round 1

#35 rohanbanerjee closed 4 months ago
8
Training and Inference discussion for baseline model

#34 rohanbanerjee closed 4 months ago
4
Creation of a `held-out` test data for active learning training phase validation

#33 rohanbanerjee opened 8 months ago
3
A way to assess normalization quality

#32 MerveKaptan opened 8 months ago
6
Centralize data internally at a single place until uploaded to OpenNeuro

#31 jcohenadad closed 4 months ago
7
Upload dataset on OpenNeuro

#30 jcohenadad closed 4 months ago
28
Perform active learning to correct problematic segmentations

#29 jcohenadad closed 6 months ago
8
Project management

#28 jcohenadad opened 11 months ago
0
Consider training a cord + CSF mask

#27 jcohenadad opened 11 months ago
0
Add Arnaud's data

#26 jcohenadad opened 11 months ago
5
Systematic review of binary ground truth quality

#25 jcohenadad closed 4 months ago
13
Update the binary ground truth segmentation to make it soft

#24 jcohenadad closed 8 months ago
2
Try running contrast-agnostic model on the EPI data

#23 jcohenadad closed 8 months ago
9
No segmentation of first and last slice in the ground truth

#22 rohanbanerjee opened 1 year ago
14
Dataset QC manual verification and selection for training final MONAI segmentation model

#21 rohanbanerjee closed 1 year ago
6
Experiment: Inference of a 3d nnUNet on a single slice

#20 rohanbanerjee opened 1 year ago
3
List of beta testers of this project

#19 rohanbanerjee opened 1 year ago
0
Masks drawn based on tSNR image instead of mean

#18 MerveKaptan opened 1 year ago
1
MGH dataset - Creating json files from niftis

#17 MerveKaptan opened 1 year ago
1
MGH dataset - How to deal with combined Cord + CSF masks

#16 MerveKaptan opened 1 year ago
2
Rb/qc_script

#15 rohanbanerjee closed 1 year ago
0
Added participants.tsv file

#14 rohanbanerjee closed 1 year ago
0
Potential issues with the ground truth for Zurich Lumbar data

#13 rohanbanerjee closed 6 months ago
7
Addition of scripts

#12 rohanbanerjee closed 1 year ago
2
ivadomed config files for training

#11 rohanbanerjee closed 1 year ago
0
Update README-coauthorship

#10 MerveKaptan closed 1 year ago
0