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Hello,
The
files mri_surcluster and mri_volcluster that you downloaded are patched
versions for the linux distribution, so they won’t run on MacOS.
But you should need to download them as they should already
exist in the MacOS freesurfer distributio
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Hi,
I recently downloaded fspalm, mri_surfcluster and mri_volcluster for
freesurfer v6.0 from
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/PALM/ and
added them to the freesurfer/bin folder (had to replace the previous
versions of mr
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great, that worked, thank you!
after that I recon-all'ed the colin27 brain so that I could use vol2label
and label2annot for a lh.aal.annot and rh.aal.annot.
On Thu, 28 May 2020 at 17:53, Douglas N. Greve
wrote:
> Not that I know of. I played aroun
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I see. Thanks for answering all my questions!
Best,
Prad
On Fri, May 29, 2020 at 9:45 AM Bruce Fischl
wrote:
> External Email
>
> Hi Prad
>
> that is a hard question to answer. brain.mgz has been more aggressively
> bias corrected than norm and will
Hi Prad
that is a hard question to answer. brain.mgz has been more aggressively
bias corrected than norm and will have removed most of the variability in
the wm. If gm is all you care about you could use it, but if you also
care about wm you might use the norm (or even the nu)
cheers
Bruce
O
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Thanks for clarifying that!
Just one more question: For either pctsurfcon or mri_cnr, is brain.mgz the
more appropriate volume to extract the g-w contrasts or g-w or g-csf CNR
values from cortical parcels? (compared to norm.mgz)
Thanks,
Prad
On Fri, M
Hi Prad
for mri_cnr, yes, it samples inwards and outwards 1mm along the surface
normal. And I think pctsurfcon is the tool I meant, but hopefully David
and/or Doug can confirm
cheers
Bruce
On Fri, 29 May 2020, Pradyumna Bharadwaj wrote:
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Hi Dr. F
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Hi Dr. Fischl,
It looks like *pctsurfcon* was the tool you were referring to. Is this the
right one?
Also, would brain.mgz be the appropriate volume to use to extract the G-W
contrast ratios for the cortical parcels?
Finally, for mri_cnr according to
Hi Rene,
I don’t think you can do it from the command-line. We’ll add an option for it.
Best,
Ruopeng
> On May 29, 2020, at 10:15 AM, Schranzer René
> wrote:
>
> External Email - Use Caution
>
>
> Hello FreeSurfer Developers,
>
> is there a way to display only selected la
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Hello FreeSurfer Developers,
is there a way to display only selected labels from the aseg.mgz file using the
freeview command line (with FreeSurfer V. 7.1).
I know that it is possible to manually turn individual labels on and off in the
2D slice view
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TO: freesurfer@nmr.mgh.harvard.edu
SUBJECT: Error in Monte Carlo simulation: Error running mri_surfcluster
Hello FreeSurfer Developers,
I'm attempting to run a longitudinal analysis on structural T1 images for a
sample, as described on the freesurfer
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