Hi Jodie
you can do this on the surface, then project the resulting label 1mm into
the white matter if I understand what you want correctly. You might also
check out the wmparc.mgz and see if it already does what you want.
cheers
Bruce
On Tue,
29 Jan 2013, Jodie Davies-Thompson wrote:
Dear Freesurfer users and experts,
We are attempting to grow a mask that we have created in FSL, to expand it
into white matter.
At first, we tried this in FSL using the dilM command which dilated the size
of the mask by n voxels. We then multiplied this by a segmented white
matter mask (again, created in FSL) so only the white matter voxels were
included. However, a problem with this method, is that if a mask is over a
gyri (as most of our masks are), then diluting the mask in a non-inflated
brain causes some voxels from an adjacent gyri to be included.
What we would like to be able to do, is to dilute the mask using the
inflated white matter brain created by Freesurfer, and then to take this
back into FSL space; thereby, allowing us to create a mask of which includes
the true surrounding white matter rather than white matter from adjacent
gyri.
Hope this makes sense!? Does anyone know how to do this or could point us in
the right direction?
Cheers,
Jodie
-
---
Jodie Davies-Thompson, Postdoctoral Fellow
Department of Ophthalmology & Visual Sciences
UBC/VGH Eye Care Centre
2550 Willow Street
Vancouver, BC, V5Z 3N9
Canada
Tel: 604-875-4111 ext 69003
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