Thank you Anastasia,
ah, yes, that might have been easier [I wonder though if I might have had some issues with different tract lengths etc.?]. I wanted to make sure that my coordinates relate to the tract, so I decided just to flip the x-coordinate, change the directory name and all the indication in the byvoxel.txt files pertaining to e.g. 'lh.unc' to 'rh.unc'. And I did all of this just for patients with right TLE. Then I ran trac-all stat -c ... and looked at 'lh' as those ipsilateral tracts and 'rh' as contralateral ones. Has worked as well.
All the best wishes,
Barbara
On 27/07/2016 06:32, Anastasia Yendiki wrote:
Hi Barbara - Your hack sounds like the right idea. One option would be to switch the FA values between the pathstats.byvoxel.txt files in the lh.* and rh.* output directories, by editing the text files without renaming the directories.
Hope this helps,
a.y
On Mon, 25 Jul 2016, Barbara Kreilkamp wrote:
Dear Freesurfers,
I've got data pertaining to patients with left and right-sided temporal lobe epilepsy (TLE). My aim is to group those tracts according to side of epilepsy for waypoint comparisons.
Basically for patients with right TLE I'd like to look at right tracts and at the same time for patients with left TLE I'd like to look at left tracts (ipsilateral tracts), I need to do the same for the contralateral tracts. Is there a straightforward way of doing this?
I've already copied the tracts to respective ipsi and contralateral byvoxel.txt files. Like so: for i in R*/dpath/rh*/pathstats.byvoxel.txt; do cp $i ${i/byvoxel./byvoxel_ipsiRTLE.}; done ; for i in R*/dpath/lh*/pathstats.byvoxel.txt; do cp $i ${i/byvoxel./byvoxel_contraRTLE.}; done Now I have to flip the x-coordinates in the patients with right TLE (to make them more comparable to the tracts of the patients with left TLE). That will not be a problem, but I wonder if I am missing something? Can I then just go ahead and run trac-all -stats -c dmrircfile to generate the mean waypoint tracts etc.?
Thank you very much, Best wishes,
Barbara
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