sct-pipeline csa-atrophy issues

sct-pipeline / csa-atrophy

Evaluate the sensitivity of atrophy detection with SCT

https://csa-atrophy.readthedocs.io/

MIT License

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Merge final graph to branch for contrast-agnostic

#109 sandrinebedard closed 3 months ago
0
Add badge pointing to RTD

#108 jcohenadad opened 3 years ago
0
Implement torchIO for transformations

#107 PaulBautin opened 3 years ago
5
README: mention version of spine generic dataset

#106 jcohenadad opened 3 years ago
0
Add doc check in PR

#105 jcohenadad opened 3 years ago
0
Automatic documentation with Sphinx and Read the Docs

#104 PaulBautin opened 3 years ago
2
calculate CSA_mean_diff

#103 jcohenadad opened 3 years ago
0
wrong doc

#102 jcohenadad opened 3 years ago
1
would be nice to replace with latex equations inside readme

#101 jcohenadad opened 3 years ago
1
Update ref to sample size computation in csa_rescale_stat.py

#100 PaulBautin opened 3 years ago
0
Retrieve manual segmentations

#99 PaulBautin closed 3 years ago
0
Update stats plots, add longitudinal sample size calculation

#98 PaulBautin opened 3 years ago
6
Remove non-cropped transformed images

#97 PaulBautin closed 3 years ago
0
Remove intermediate transformed images

#96 jcohenadad closed 3 years ago
0
Draw bissection automatically on the graph

#95 jcohenadad opened 4 years ago
4
Increase the dilation used for cropping

#94 PaulBautin closed 3 years ago
1
Resampling images to 0.5 mm isotropic

#93 PaulBautin closed 3 years ago
5
Add graph showing error in function of CSA

#92 PaulBautin opened 4 years ago
1
Add image resampling resolution in config file

#91 PaulBautin closed 4 years ago
0
resample t2w images to 1mm isotropic

#90 PaulBautin closed 4 years ago
0
Crop around transformed segmentation

#89 PaulBautin closed 4 years ago
4
Re-introduce padding in transformation

#88 PaulBautin closed 4 years ago
2
Added graph showing intra-subject variability (COV) as a function of atrophy estimation error

#87 PaulBautin closed 3 years ago
3
Add graph showing intra-subject variability (STD) as a function of atrophy estimation error

#86 jcohenadad closed 3 years ago
6
Resample images to desired resolution

#85 PaulBautin closed 4 years ago
2
CSA-atrophy pipeline scheme

#84 PaulBautin closed 4 years ago
2
Visible outliers for T1w and T2w atrophy results

#83 PaulBautin opened 4 years ago
13
Refactoring of affine_transfo

#82 PaulBautin closed 4 years ago
2
Remove padding during transformaton

#81 PaulBautin closed 4 years ago
0
Stat formula error in README

#80 PaulBautin opened 4 years ago
0
Set config files to process t1w images

#79 PaulBautin closed 4 years ago
1
Update link to data-multi-subject

#78 PaulBautin opened 4 years ago
1
Set number of threads used in processing

#77 PaulBautin closed 4 years ago
0
Compute Canada: inefficient use of the processors

#76 PaulBautin closed 4 years ago
0
Resample disk labels

#75 PaulBautin closed 4 years ago
1
Error: resampling of disk labels fails

#74 PaulBautin closed 4 years ago
1
Freeze config files for processing on compute canada: graham

#73 PaulBautin closed 4 years ago
2
Correction: run_all does not use OpenMP

#72 PaulBautin closed 4 years ago
0
Improvement in CSA measures with T2w images

#71 PaulBautin closed 4 years ago
5
Use manual segmentation only during labelling

#70 PaulBautin closed 4 years ago
1
Underestimated CSA measures on T1w images after rescaling

#69 PaulBautin closed 4 years ago
9
run_all doesn't seem to use openmp

#68 cfhammill closed 4 years ago
1
Crop labeled images in process_data.sh

#67 PaulBautin closed 4 years ago
8
Image containing manual labels is not cropped

#66 PaulBautin closed 4 years ago
7
Revert "Reorient and resample manual labelling"

#65 PaulBautin closed 4 years ago
1
add schematic to README

#64 PaulBautin closed 4 years ago
1
Correct run_all.py log file path

#63 PaulBautin closed 4 years ago
0
batch log output at the wrong location

#62 jcohenadad closed 4 years ago
0
various improvements in run_all.py

#61 PaulBautin closed 4 years ago
3
Reorient and resample manual labelling

#60 PaulBautin closed 4 years ago
13