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 <fis...@nmr.mgh.harvard.edu> wrote: > 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 >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > The information in this e-mail is intended only for the person to whom it > is > addressed. If you believe this e-mail was sent to you in error and the > e-mail > contains patient information, please contact the Partners Compliance > HelpLine at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. > >
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