Hi June - Not in principle, any number of directions > 30 should be compatible.
Is there anything else that's different about this data, e.g., SNR, motion,
population with more morphological variability, etc.?
a.y
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of June Kang
<cn...@korea.ac.kr>
Sent: Saturday, November 3, 2018 12:24:54 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Tracula Question-How the threshold in final merged
tracts are defined?
External Email - Use Caution
Thanks, Professor Anastasia,
I am testing HCP data with 96 directions.
There are really frequent failure for right cingulum-angular bundle and right
uncinate fasciculus (more than 25%), which not happened with my own
64-direction data with Siemens Trio.
Is there any known issue or recommended modification of the pipeline for HCP
data or data with more directions?
Bests,
J.
On Nov 2, 2018, at 10:44 AM, Yendiki, Anastasia
<ayend...@mgh.harvard.edu<mailto:ayend...@mgh.harvard.edu>> wrote:
They are not random, they are 20% of the maximum value. If you want to generate
stats at a different threshold, you can find the dmri_pathstats command line in
trac-all.log and add the --pthr option (the default 20% would be --pthr .2).
On Nov 1, 2018 9:01 PM, June Kang <cn...@korea.ac.kr<mailto:cn...@korea.ac.kr>>
wrote:
External Email - Use Caution
In the visualization step of Tracula processing, freeview -tv
merged_avg33_mni_bbr shows some tracts with very high threshold (i.e. 171),
which make them look like the reconstruction-failed ones.
The tracts failed to reconstruction usually show threshold of 300 (not
changeable) with tiny rounded cylinder shape.
In successfully reconstructed tracts with very high threshold, it looks ok,
when I adjust threshold to the similar value from contralateral one.
Is there any reason for this extremely high threshold? or it’s just randomly
set values?
Bests,
J.
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