search

courtois-neuromod / anat-processing

Pipeline to process anatomical data, including microstructure metrics from DWI and MT data
MIT License
5 stars 3 forks source link

Add gradient non-linearity distortion correction on T1w and T2w scans #19

Open jcohenadad opened 3 years ago

jcohenadad commented 3 years ago

The brain T1w and T2w scans are not corrected for gradient non-linearity (https://github.com/courtois-neuromod/cneuromod/issues/10), so this correction should be added to the pipeline.

For inspiration on how to do this, see: https://github.com/sct-pipeline/ukbiobank-spinalcord-csa/blob/master/gradunwarp_installation.md

agahkarakuzu commented 3 years ago

@jcohenadad is this exclusive for _T1w and _T2w, or should we apply the same to the _MTS group as well?

jcohenadad commented 3 years ago

@jcohenadad is this exclusive for _T1w and _T2w, or should we apply the same to the _MTS group as well?

exclusive for the T1w MPRAGE scan and T2w scans. The _MTS do have the 3D distortion correction on:

T1w Screen Shot 2021-05-05 at 2 03 25 PM

T2w Screen Shot 2021-05-05 at 2 03 34 PM

MTS Screen Shot 2021-05-05 at 2 03 45 PM

agahkarakuzu commented 3 years ago

Thank you so much @jcohenadad I'll add this as a step.