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Hi,
Thank you so much , it works.
BRG,
Nazanin
On Wed, Oct 10, 2018 at 9:41 PM Greve, Douglas N.,Ph.D. <
dgr...@mgh.harvard.edu> wrote:
> if you want to mask the thickness, then use mri_mask
>
> On 10/10/2018 10:30 AM, N Saf wrote:
> >
> >
if you want to mask the thickness, then use mri_mask
On 10/10/2018 10:30 AM, N Saf wrote:
>
> External Email - Use Caution
>
> Dear Douglos,
>
> as you recommended, I used the --outmask and create the binary mask of
> a label in mgh format. as I use the mri_binarize command with this
>
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Dear Douglos,
as you recommended, I used the --outmask and create the binary mask of a
label in mgh format. as I use the mri_binarize command with this mask and
?h.thickness; the output is binary too or if I use --match flag or --min
--max flag the
Use the --outmask option
On 10/07/2018 08:59 AM, N Saf wrote:
>
> External Email - Use Caution
>
> Dear Douglos,
>
> I did not understand how to use mri_label2label with the mask
> option(there is srcmask options not mask alone !). I extract my labels
> and as you explained I wanted to
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Dear Douglos,
I did not understand how to use mri_label2label with the mask option(there
is srcmask options not mask alone !). I extract my labels and as you
explained I wanted to create i.e. binary mask of rh.fusiform.label with
mri_label2label :
Yes, that should work. You can create a mask by breaking the annotation
into labels (mri_annotation2label), then converting the label into a
binary mask (mri_label2label with --mask option), then mri_binarize --i
lh.thickness --mask youmask.mgh --o lh.thickness.masked.mgh
On 07/30/2018 01:47
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Dear Freesurfer Experts,
I wonder how can I show the cortical thickness surface on just one region
of my interest in Freeview. assume that I want to see the thickness
surface of one of the regions in DKTatlas. does it work if I make a binary
mask of
I think you could just load the cortex.label map onto the surface and
edit those regions out. Then they will not contribute to smoothed maps,
etc... Doug: any reason this wouldn't work?
Bruce
On Tue, 13 Feb 2018, James Hobart wrote:
> Hi all,
> I am looking to mask out a small region of the
Hi all,
I am looking to mask out a small region of the GM when calculating the
cortical thickness of ROIs across the brain. Essentially I have a couple of
cases with small GM lesions where the cortical thickness is less likely to
be meaningful for my analysis.
I have binary lesion masks and also
