You need to specify some volume to display the paths over. The paths are
just text files with a list of point coordinates, so it has no idea in
what space to display them if you don't specify a volume. Check the
tracula tutorial, too.
On Tue, 9 Feb 2016, Karuna Subra wrote:
Hi Anastasia,
Hi Anastasia,
Yes, it's the one that came with freesurfer 5.3. Is it possible to use the
GUI to get waypoint to display the paths rather than command line? I have
all the mean path outputs in the stats folder as shown here but somehow am
getting this weird error below.
Thanks.
Karuna
On Fri,
Hi Karuna - I haven't seen this before. Can you check which version of
freeview you have? Is it the one that came with freesurfer 5.3 or a newer
version of freeview that you downloaded separately from the web site?
a.y
On Thu, 28 Jan 2016, Karuna Subra wrote:
HI Anastasia,
I'm new to trac
HI Anastasia,
I'm new to tracula. I was able to get the stats of each diffusion
parameter for each tract, as shown below. However, when I try and use
waypoint in freeview to display the mean paths, using the command here:
freeview -w
/data/bil-mb2/fMRI/CAST/all_freesurfer_subjectsdir/stats/*.pa
Hi John - The values are weighted (multiplied) by the probability
distribution (path.pd.nii.gz) at the same voxel. So they are the expected
values, from a probabilistic standpoint. The distribution is thresholded
at 20% of its maximum by default (this is a parameter in dmri_pathstats).
Best,
Hi Anastasia,
How the script "dmri_pathstats" compute the weighted FA, MD, AD, and RD values?
I checked the command "dmri_pathstats" inside the file "trac-all.log" but I was unable to figure out how this weighting is working. Is it by multiplying the mean DTI metrics by the number of voxel?
I
