Hi,

Thanks a lot for your replay but I still have some problems

running:

fslmeants -i masked_cluster.nii.gz --showall "tail -2" -o out.txt
results with huge file (dose not seem like single coordinate)

What did I do wrong

Thanks

Moran

On Thu, Aug 19, 2010 at 11:28 AM, Mark Jenkinson <[log in to unmask]> wrote:

Hi,

You can use fslmeants with the --showall command (and the
-i and -m to specify your intensity image and the appropriate
VOI mask). This will give you an output that contains three
rows with values for the x, y and z coordinates respectively,
and then the row containing your intensities. If you do not
need the coordinates then you can simply use "tail -2"
to give you the required values (as there is a blank line at
the very end that needs to be ignored).

All the best,
Mark

On 19 Aug 2010, at 10:18, Moran Artzi wrote:

Hi,
Flowing FAST segmentation I got 3 VOIs.
I want to extract the value of the voxels in each cluster to a text file in order to scatter-plot them

The fslmaths -M option gives the entire cluster mean value.
How can I get it's voxels values?

Thanks
Moran