Re: [Freesurfer] wm edits not incorporated on recon-all rerun

2017-04-01 Thread Bruce Fischl
sure, upload one and give us detailed instructions on how to find what you think the problem is (like voxel coords of where you made an edit that didn't result in the modifications you thought it would) cheers Bruce On Sat, 1 Apr 2017, Octavian Lie wrote: Dear Bruce, I am using the recon ed

Re: [Freesurfer] wm edits not incorporated on recon-all rerun

2017-04-01 Thread Octavian Lie
Dear Bruce, I am using the recon editing and all voxels removed are 1. If this is the correct value for removed wm voxels during editing, Is there a way I could send you a subject? Thank you, Octavian On Sat, Apr 1, 2017 at 8:47 AM, Bruce Fischl wrote: > Hi Octavian > > what tool are you using

Re: [Freesurfer] wm edits not incorporated on recon-all rerun

2017-04-01 Thread Bruce Fischl
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

[Freesurfer] wm edits not incorporated on recon-all rerun

2017-03-31 Thread Octavian Lie
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