[Camino-users] connectivity analysis

Mojdeh Zamyadi mojdehzm at gmail.com
Tue Jan 21 08:35:05 PST 2014


Hi all,

I have a few question regarding connectivity analysis using Camino. I want
to create a connectivity matrix for 92 regions from AAL atlas (I've already
nonlinearly registered and resampled the AAL atlas into each subject's DTI
space). I've looked at the tutorial page:
http://cmic.cs.ucl.ac.uk/camino//index.php?n=Tutorials.ConnectivityMatrices

and still have a few questions. Can I use probabilistic tractography (ie.
track -inputmodel bayesdirac_dt) or deterministic tractography is good
enough?! is there a point in doing the probabilistic tractogrtaphy (since
it takes a lot of time!).  Also, it's mentioned in the page that "it is
assumed that whole-brain tractography has already been performed", the
command I was thinking of using is the following:
track -inputfile DTI_ec_VoxelOrder.Bfloat -inputmodel bayesdirac_dt
-schemefile bvec_rot.scheme -iterations 1000 -seedfile
AAL_labels_to_DTI_resampled.nii.gz -brainmask B0_brain_mask.nii.gz
-pointset 0 > bayesianTracts_1000.Bfloat

where my -seedfile is the 92 region AAL atlas which does not cover the
whole brain! I though since I'm only interested in those ROIs, I can used
that instead of whole brain ROI. Could someone clarify these points for me?

Thanks a lot,
-Mojdeh
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