Dear All
Apologies for what I'm sure is a very basic question. I'm new to using
freesurfer, and would like to generate cortical parcellations for running in
probtrakx. I have followed the instructions from various sources and have
managed to generate the parcellations from recon-all, extract the label files
from the parcellation, then use mri_mergelabels and label2surf to generate the
the .gii files needed for probtrakx. I'd like to be able to display the surface
files for illustrative purposes, but I'm struggling to apply the surf2vol
command.
>From the terminal window I can see that the commands required are:
surf2vol <surf> <refvol> <outvol> <convention>
I presume that <surf> is the .gii file I'm trying to visualise, and <outvol> is
to specify the name of the output volume the command will generate, but what
should I be using as the <refvol>? I would be very grateful for any guidance.
Please accept my apologies if I've missed a very obvious online explanation for
this and thank you in advance.
Dan Lumsden
Clinical Research Fellow
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