Try recon-all -make all
> On Jan 2, 2016, at 4:37 PM, james pardon wrote:
>
> Dear Bruce,
>
> I'm following your advice and now have replaced wm.mgz. Could you please let
> me know what options I should add to recon-all so not to overwrite my wm.mgz
> and get things going from this point? ( I
Dear Bruce,
I'm following your advice and now have replaced wm.mgz. Could you please
let me know what options I should add to recon-all so not to overwrite my
wm.mgz and get things going from this point? ( I have already run the
recon-all so just need to re-run it with the replaced wm.mgz)
aseg.m
Hi James
what kind of segmentation? If gray/white you could replace the wm.mgz and
go from there, otherwise you would replace the aseg.mgz. In either case,
make sure you use our conventions (the FreeSurferColorLUT.txt for the
aseg, or set every wm voxel to the brain.mgz intensity if it is in t
Dear All,
I was wondering whether there is a simple way to pass T1 segmentations I
have from another software to Freesurfer, in order to do the remaining
recon-all steps?
Thank you in advance,
James
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