Hi Priti,
Adjusting the threshold does not help. Indeed, the voxel number, only about 50 or so, is much less compared to right cst, which has couple thousands. In addition, the segmented image is a binary image, i.e. only intensity 0 and 1000, while other tracts have gray scale ranging from 0 to 100 or so.
ping
On Thu, Sep 22, 2011 at 12:33 PM, Priti Srinivasan rspriti@nmr.mgh.harvard.edu wrote:
Hi Ping,
Did you try adjusting the threshold for left cst tract? In freeview you can find the tract labels in the left corner, if you click on the left cst tract and use the threshold button below to decrease the threshold. Please let us know if that improves the visualization.
Cheers, Priti
Hello,
The segmented left CST tracts of one of our 3T data was not satisfactory, which has only few voxels with 1000 gray values (see attached snapshot pictures for "trac-all" and "cst_prob"). The manually tracking using deterministic tractography seems OK (see cst_stremline). Any suggestions on which step may go wrong in trac-all?
Thank you,
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