Hi Priyanka,
The cortical labels are the same for wmparc.mgz and aparc+aseg.mgz (taken from
the ?h.aparc.annot files), but they differ on the way the white matter is
labeled. The aparc+aseg uses the white matter and subcortical labels from the
aseg.mgz, while the wmparc labels each point in the white matter as the nearest
cortical label to that point, as well as the subcortical labels from the aseg.
The perirhinal cortex isn't included in the aparc, so it isn't in either of
these mgz files. However, it is included in the Brodmann area annotation
files, and stats are computed for this region automatically when you run
recon-all:
<subject>/label/lh.BA.annot
<subject>/label/rh.BA.annot
<subject>/stats/lh.BA.stats
<subject>/stats/rh.BA.stats
To see this on the inflated left hemisphere, for example, you can run:
freeview -f subject/surf/lh.inflated:annot=subject/label/lh.BA.annot
Best,
Lee
On Thu, 20 Aug 2015, Priyanka Mehta wrote:
Hi Lee
Thank you for your response.
I have a follow up question- After running recon-all -all, I found the
parahippocampal cortex and entorhinal cortex under two files- wmparc.mgz and
aparc+ages.mgz. What is the difference between the two?
Also, I haven't been able to find perirhinal cortex under any of the files. I
wonder why?
On Mon, Aug 3, 2015 at 5:22 PM, Lee Tirrell <ltirr...@nmr.mgh.harvard.edu>
wrote:
Hi Priyanka,
These are all automatically created automatically by running recon-all
-all.
Best,
Lee
On Sat, 1 Aug 2015, Priyanka Mehta wrote:
Hi
Please excuse my extremely basic question.
I would like to perform segmentation on my T1 image to obtain the
following:
a. Entorhinal Cortex
b. Perirhinal Cortex
c. Parahippocampal Cortex
Is there a specific command I should be using in the 6.0 dev
version? Or should I just be using recon-all -all ?
Best,
Priyanka Mehta
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