Hi Jacek - Yes, these definitely look all over the place! It would help to
get a screenshot of your subject's FA map and some more info on the
acquisition. For example, is there any head motion? What's the voxel size
and the number of gradient directions?
Best,
a.y
On Sun, 14 Feb 2016, Jacek Manko wrote:
Dear Freesurfer experts,
I have also noticed something wrong with the tracts I reconctructed. There were
no erroors during the processing, but when I visualized all tracts in
Freeview according to your command "freeview -tv
my-subject/dpath/merged_avg33_mni_bbr.mgz", but the results seem a bit odd to say
the least. Please
have a look at the attached image.
I have also notice abnormal volumes of these tracts in comparison to your
elmo-subjects. For example the volume of left uncinate for your tutorial
subject elmo.2012 is 393 and for my subject it is 5459. This discrepancy seems
to coincide with with what you can spot in my screen, because it was my
first impression that these tracts are extremely large.
I run tracula with default commands as you stated in your tutorial, no major
changes were made. If there is anything you could advise me, I will very
grateful. Are these results ok or I should udertake some steps? If you perhaps
need some additional information I will be pleased to provide you with
that as well.
Cheers,
Jacek
Dnia 10-02-2016 o godz. 11:41 denizzgursel napisał(a):
Dear Anastasia and Tracula users,
I succesfully ran the longitudinal Tracula procedure for one subject. However,
when I visualized the tracts, they look a bit weird (not smooth).
Even if I played with the threshold on freeview, I couldn't make them look nice
as in the wiki page. I checked the registration and it looks
accurate, so I am not sure what could be wrong. I am attaching the messy
looking tracts for your reference.
Could you tell me if I should run again with reinit=1 for these tracts?
Thank you very much for your time.
Best regards,
--
D.
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