Hi Octavian
what tool are you using for the deletion of wm voxels? Make sure it is the "recon editing" tool in freeview or the equivalent. We do NOT set voxels to 0 when you erase - we set them to 1. This allows us to detect the erasure and preserve it during reprocessing.
cheers Bruce
On Fri, 31 Mar 2017, Octavian Lie wrote:
Dear All,
I am stuck. Several brains I segment need both wm and pial edits, typically deleting incorrectly incorporated voxels, such as dural voxels for pia, and basal temporal hyperintensity artifact or bright dural voxels included due to partial volume effects for wm.
I edited brainmask.mgz or brain.finalsurfs.manedit.mgz for pia, and wm.mgz for wm. Rerunning recon-all led as expected to pial correction, however wm edits did not end up in ?h.white, despite increasingly desperate efforts and commands:
recon-all -autorecon2-wm -autorecon3 recon-all -autorecon2 -autorecon3 recon-all -make all
Please advise, I could FTP one subject to you for suggestions. Again, edits here are all voxel deletions and not additions to wm.mgz. Thank you, Octavian