Dear FSL experts,
In order to report the results of TBSS analysis, I did the following:
cluster -i tbss_RD_tfce_corrp_tstat2.nii.gz -t 0.95 -o cluster_index --mm --osize=cluster_size > cluster_info.txt
The content of cluster_info is
Cluster Index Voxels MAX MAX X (mm) MAX Y (mm) MAX Z (mm) COG X (mm) COG Y (mm) COG Z (mm)
1 41305 1 11 -20 -1 0.979 -26.5 2.56
Then I used fslmaths -dt int cluster_index.nii.gz -thr 1 -uthr 1 -bin cluster_mask1 to create mask for this cluster.
Finaly I used atlas query as the following:
atlasquery -a "JHU White-Matter Tractography Atlas" -m cluster_mask1.nii.gz
the results are as the following:
Anterior thalamic radiation L:1.77475
Anterior thalamic radiation R:1.53817
Corticospinal tract L:1.3281
Corticospinal tract R:1.41649
Cingulum (cingulate gyrus) L:0.240552
Cingulum (cingulate gyrus) R:0.00225154
Cingulum (hippocampus) L:0.297494
Cingulum (hippocampus) R:0.00769883
Forceps major:0.383101
Forceps minor:0.0229028
Inferior fronto-occipital fasciculus L:1.04522
Inferior fronto-occipital fasciculus R:1.22639
Inferior longitudinal fasciculus L:1.68708
Inferior longitudinal fasciculus R:1.10311
Superior longitudinal fasciculus L:1.63842
Superior longitudinal fasciculus R:2.11788
Uncinate fasciculus L:0.236122
Uncinate fasciculus R:0.013945
Superior longitudinal fasciculus (temporal part) L:0.725336
Superior longitudinal fasciculus (temporal part) R:0.91892
Now I have one cluster and the probability for many tracts in the same cluster. How can I define the coordinate for every tracts from the output of atalsquery?
Thanks
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