khanlab / khanlab/hippunfold

Curvature has flipped intensities across hemispheres

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Dominant language
Python
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Description

Dear HippUnfold-team, I'm wondering whether there might be an issue with how we run HippUnfold or with how the curvature is calculated. We still used `v1.5.2` for this one.
When you look at the group-level curvature map that we generated,

Image

you can see that the intensities are flipped instead of only mirrored. For comparison, gyrification and thickness maps are only mirrored:

Image

I've loaded an individual `sub-XXX_hemi-L_space-T1w_den-0p5mm_label-hipp_curvature.shape.gii` file in `wb_view` and verified that this is not due us accidentally flipping something when calculating the group-level maps. I am wondering whether this is an issue because in DeKraker et al. (2022) the curvature maps looks mirrored not flipped like the rest of the maps:

Image

Source: https://pmc.ncbi.nlm.nih.gov/articles/PMC9831605/

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Research direction

Start by reproducing the group-level curvature map from the individual sub-XXX_hemi-L_space-T1w_den-0p5mm_label-hipp_curvature.shape.gii file using HippUnfold v1.5.2, and inspect the result in wb_view. Compare curvature with the gyrification and thickness maps to identify where intensities become flipped; done means determining whether the issue is in HippUnfold or the curvature calculation and documenting the corrected behavior.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
data
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Quiet
Clarity
Needs clarification
Newbie friendliness
40/100

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