Hi Ed
it was never the case that an edited on wm.mgz voxel had the value of
110. It was always 255. 110 is the value that locations have when they
are either an automatically or manually added control point
cheers
Bruce
On Tue, 4 Feb
2014, Ed Gronenschild wrote:
Hi Martin,
One thing I want to be sure of:
should the edited wm voxels really have a value of either 1 or 255.
In previous versions an added wm voxel had a value of about 110,
this is not anymore the case?
I'm asking this because I want to edit wm by using results from another
application that segments wm, so not by means of manually editing
with freeview.
Cheers,
Ed
On 4 Feb 2014, at 17:00, Martin Reuter wrote:
Hi Ed,
take a look at this wiki page about edits in the long stream:
https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalEdits
everything should work. for long, you'd edit the base. If that is not
sufficient, you can edit the cross or the long. Edits from the cross
should be transferred to the long, except if the long already contain
manual edits.
Best, Martin
On Feb 4, 2014, at 9:06 AM, Ed Gronenschild
<[email protected]> wrote:
Hi Bruce,
When I have a look in the recon-all script I see that it
is tested if
there
are voxels present in wm.mgz with value 1 or 255. Both
indicate
wm editing. The comment in recon-all says that 1 means
remove
and 255 means add.
And concerning my second question: are these edited voxels
correcly processed with the option autorecon2-wm and
subsequently
with longitudinal processing?
Cheers,
ed
On 4 Feb 2014, at 14:27, Bruce Fischl wrote:
Hi Ed,
yes, although we reserve the values under 5 I
think for editing
changes,
I believe we only use 1 at the moment.
cheers
Bruce
On Tue, 4 Feb 2014, Ed Gronenschild
wrote:
Hi,
From what I can read in the wiki
about wm editing, I understand
that edited wm voxels have values
of either 255 (added) or
1 (removed) and no other values.
These are stored in the file
wm.mgz. Is that correct?
Before processing a lot of data I
want to be sure that running
recon-all with the option
autorecon2-wm will recognize these
voxels, also during longitudinal
processing. Can you confirm
this.
FreeSurfer v5.3.0 Mac OSX10.6
Kind regards,
Ed
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Dr. Martin Reuter
Assistant in Neuroscience - Massachusetts General Hospital
Instructor in Neurology - Harvard Medical School
MGH / HMS / MIT
A.A.Martinos Center for Biomedical Imaging
149 Thirteenth Street, Suite 2301
Charlestown, MA 02129
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