Hello,
We are trying to compare FreeSurfer's parcellation with what we do
here manually. To that end, we were wondering if we could access a
detailed protocol that was used to manually create the ROIs that went
into the FS Parcellation atlas? We have examined the Desikan et al
(2006) pa
Hi Mike,
imagine you had only on subject your study. Then using the buckner
atlas as an overlay (or fsaverage, which is kind of equivalent) would not
be representative at all. If the registration works perfectly and you have
a fair number of subjects then there probably isn't much difference,
Hi Bruce,
Re your 2nd point: My assumption was that very few FS users are actually
creating their own atlases. To do that you need to do (much) more than
just run make_average_subject, right? (Namely, create your own .gcs
file for annotations, and .tif for registration, correct? And isn't
that
Hi Mike,
a couple of things. One is that creating your own average will give you a
better ability to see what the true anatomical localization of your effects
are. Another is that you can re-register your subjects to your own atlas,
and possibly obtain better registration, particularly if your
Hello,
There have been numerous posts recently related to the creation of a
study specific "average subject". I have a question about the
purpose/motivation of this for surface-stream analysis/visualization
that I was hoping someone could clarify.
Specifically, my understanding is that the annot
Hi Thomas,
have you visually inspected the talairach.xfm file? This error means that
the parameters of the transform fall far enough outside the normal range
that it is suspicious. You can rerun with -notal-check if you are sure it
is correct, but you should check and possibly fix it.
cheers
Hi all,
I have two questions regarding glmfit and testing for effects of different
variables. I have four groups. When testing for effects of age across all
of the groups, will there be a difference when assigning each group a
class in my fsgd file, with age as a variable, like so:
Class PH
Class
