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sandrinebedard / k23-cervical-radiculopathy

Analysis pipeline on Cervical Radiculopathy MRI project
MIT License
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Motion correction failed for 2 subjects #4

Open sandrinebedard opened 1 year ago

sandrinebedard commented 1 year ago

Description

The motion correction is bad for 2 subjects:

the mask is Okay for the ref image but there is a lot of motion, so not all slices overlap with it:

image

This is the slice 1 of volume 125 used as ref for registration (ghosting):

image

sandrinebedard commented 1 year ago

Solution for subject sub-CR008_ses-baselinespinalcord: dilate the mask more

Solution for subject sub-HC022_ses-baselinespinalcord --> cut slices 0 and 1

sandrinebedard commented 1 year ago

I added in the preprocessing script these modifications:

For sub-HC022_ses-baselinespinalcord

https://github.com/sandrinebedard/k23-cervical-radiculopathy/blob/6e8b3fdf0bb6327190a25271b0d26b2a751b0f02/preprocess_data_spinalcord.sh#L388-L391

For sub-CR008_ses-baselinespinalcord:

https://github.com/sandrinebedard/k23-cervical-radiculopathy/blob/6e8b3fdf0bb6327190a25271b0d26b2a751b0f02/preprocess_data_spinalcord.sh#L405-L408

Motion correction is now good for both subject! 🎉