thanks Bruce :)
-Mojdeh
On 07/20/2012 04:27 PM, Bruce Fischl wrote:
> Hi Mojdeh
>
> it's really hard to say how much you should correct. In general we
> don't do that much. A couple of control points or a few voxels added
> to the wm.mgz can have a big effect if you are experienced. Mostly
> j
Hi Jordan
Don't try to evaluate the accuracy of the thalamus label on the brain.mgz, use
the norm instead. Lateral thalamus is heavily myelinated and many segmentations
miss it since its contrast with the wm is low
Cheers
Bruce
On Jul 23, 2012, at 11:34 AM, Jordan Pierce wrote:
> Hi,
>
> I
Hi Doug,
I am trying to convert MNI to RAS. I know the formula to convert from RAS to
MNI is:
MNI305RAS = TalXFM*Norig*inv(Torig)*[tkrR tkrA tkrS 1]'
In theory, I should just be able to just invert this, but I am having
difficulties because TalXFM is a non-square matrix and therefore not
inver
Hello Freesurfer experts,
I've been trying to figure out a way to run a directed search in a group
analysis. I read the tutorial on ROI analysis and some of the posts here, but
we can only do it with individual subject. Simply pout, I want to restrict my
search areas to 4 ROIs (determined from
Why isn't it square? Did you add a 4th row of [0 0 0 1]?
On Jul 23, 2012, at 5:28 PM, Jared Deck wrote:
> Hi Doug,
>
> I am trying to convert MNI to RAS. I know the formula to convert from RAS to
> MNI is:
> MNI305RAS = TalXFM*Norig*inv(Torig)*[tkrR tkrA tkrS 1]'
> In theory, I should just
The only difference between the mask and the label is the format of the
input. The mask can take any "volume" format (mgh, nii, etc) and expects
there to be a value at each veretx, and that value is a 0 or 1. The
label is a text list of vertices to include (like lh.cortex.label). If
your ROIs a
Neither of these tables is the one you want. Those are tables of
standard freesurfer ROIs and are unrelated to your map-based analysis.
You will need to do the cluster-wise correction for multiple comparisons
using the voxel-wise threshold that FDR found. Set the cwp (cluster-wise
p-value) thre
Hi all,
Some work my colleagues and I did investigating how many subjects should be
included in a study has been recently published in Human Brain Mapping (
http://www.ncbi.nlm.nih.gov/pubmed/22807270). The paper should be freely
available on pubmed central fairly soon if you don't have access to
