Hi there - If you upload the tracula directories for me, I'm happy to
try to figure out what's going on. Although honestly at this point
it's worth waiting for the new version.
Thanks!
a.y
On Tue, 30 Aug 2016, Kang, XJ wrote:
Hi,
I am trying to computer the changes of cortical parcellations and fiber
pathways using FreeSurfer v5.3 and Tracula (2014/05/26 update) . I
copied
the anatomical and DWI images from the same scan session into five
directories. Run recon-all and trac-all on the 5 same data sets, in
order to
check the reproducibility of the analysis.
Here are what I got: the Desikan-Killiany parcellations in both GM
and WM,
and the subcortical structures, repeat well. No difference found in
volume
or size of those structures. However, the volume and averaged DTI
parameters
of the fiber pathways, which found in the file
~/sub/dpath/*_PP_avg33_mni_flt/pathstats.overall.txt, varies for the 5
sets. tracula.conf files were copied from
~/freesurfer/bin/dmrirc.example.
The changes are calculated in percentage by (S1-S0)/((S1+S0)/2)*100%.
For
example, the changes of averaged FA between the 5 data sets are :
?? ? S1-S0, S2-S0, S3-S0, S4-S0
Corpus Callosum - Forceps Major
,
-1.1 , 6.0 , 0.5 , 1.3 ,
Corpus Callosum - Forceps Minor
, 0.1 , 0.0 , -1.6 , 0.0 ,
Right Anterior Thalamic Radiations
, 0.1 , -1.0 , 0.5 , 0.9 ,
Right Cingulum - Angular Bundle
, -4.8 , -2.0 , -1.5 , 3.8 ,
Right Cingulum - Cingulate Gyrus Endings ,
0.5 , -0.9 , 0.4 , -2.3 ,
Right Corticospinal
Tract , 1.9
, 0.6 , -2.2 , 1.4 ,
Right Inferior Longitudinal Fasciculus
, -2.2 , -0.8 , -1.3 , 3.0 ,
Right Superior Longitudinal Fasciculus - Parietal Endings , 0.8 ,
-0.4 , -1.2 , 0.2 ,
Right Superior Longitudinal Fasciculus - Temporal Endings , -4.9 ,
-0.6 , -2.6 , -1.3 ,
Right Uncinate
Fasciculus ,
0.5 , 1.6 , -0.9 , 3.5 ,
Even larger changes for the volume of the pathways:
?? ? S1-S0, S2-S0, S3-S0, S4-S0
Corpus Callosum - Forceps Major
, 2.2 , -33.7 , -12.3 , 1.1 ,
Corpus Callosum - Forceps Minor
, 11.9 , 4.8 , 0.6 , 7.2 ,
Right Anterior Thalamic Radiations
, -8.9 , 2.2 , -12.5 , 7.5 ,
Right Cingulum - Angular Bundle
, -38.1 , 41.6 , 34.8 , 8.6 ,
Right Cingulum - Cingulate Gyrus Endings ,
24.4 , 33.1 , 21.3 , 17.5 ,
Right Corticospinal
Tract ,
9.8 , -3.0 , 2.2 , 19.5 ,
Right Inferior Longitudinal Fasciculus
, 7.2 , 24.1 , -7.3 , 23.8 ,
Right Superior Longitudinal Fasciculus - Parietal Endings , 17.2 ,
10.2 , 25.1 , 9.9 ,
Right Superior Longitudinal Fasciculus - Temporal Endings , 15.4 ,
3.4 , -3.1 , -11.5 ,
Right Uncinate Fasciculus
, 13.3 , -1.2 , 16.4 , -3.4 ,
Any expert has the experience on these? Thank you for your help.
XJ Kang
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