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April 04, 2022 01:16PM
Sorry, lost track of the remaining questions. I believe the area is in mm2.

There is no simple tool for applying nonlinear warps to surfaces, but you can convert the surface to .asc or .ply and compute the new coordinates with 3dNwarpXYZ. Then you would have to save the new coordinates with the same triangles. Depending on the warp, it will likely make surfaces that flip inside-out and outside-in at various places, but you can try it. Moving surfaces with just an affine transformation can be accomplished with ConvertSurface.

quickspec takes type, name minimally, but you can add fun options like state, anatomical flag, domain parent and an associated label file if you like. You can also add a spec file name for the output; otherwise, it uses quick.spec for the output name.

# simplest example of quickspec
quickspec -tn gii mysurface.gii

IsoSurface is our tool for generating surfaces. You can compute a surface for every region in an atlas with a command like this one:

mkdir surfs
cd surfs
IsoSurface -isorois+dsets -input myatlas.nii.gz -o myatlassurfs.gii -Tsmooth 0.01 1500
suma -onestate -i *.gii
Subject Author Posted

Surface measures on CHARM

Doughboys February 23, 2022 03:48PM

Re: Surface measures on CHARM

Daniel Glen February 23, 2022 07:01PM

Re: Surface measures on CHARM

Doughboys March 08, 2022 11:13AM

Re: Surface measures on CHARM

Daniel Glen March 08, 2022 01:41PM

Re: Surface measures on CHARM

Doughboys March 18, 2022 03:36PM

Re: Surface measures on CHARM

Doughboys April 04, 2022 12:19PM

Re: Surface measures on CHARM

Daniel Glen April 04, 2022 01:16PM



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