Dear FSL users,
I have been following post from other FSL users in regards to using the cluster and altasquery command. However, the question remains as to whether there is a way to report p-value, cluster size and tract info in the same txt file?
In the cluster command we can get the cluster size, t-value, MNI coordinates, etc and output as follow:
Cluster Index Voxels MAX MAX X (mm) MAX Y (mm) MAX Z (mm) COG X (mm) COG Y (mm) COG Z (mm)
2 1106 0.961 6 4 24 -1.01 -4.29 25.6
1 28 0.951 -6 -35 20 -8.18 -34.4 21.4
And in the atlasquery command we get the tract and percentage involved (in the case, the JHU White-Matter atlas is used)
Anterior thalamic radiation L:1.18646
Anterior thalamic radiation R:1.01869
Corticospinal tract L:0.759451
Corticospinal tract R:0.373157
Cingulum (cingulate gyrus) L:0.259725
Cingulum (cingulate gyrus) R:0.104708
Cingulum (hippocampus) L:0.0153588
Cingulum (hippocampus) R:0.0297155
Forceps major:1.02095
Forceps minor:2.68633
Inferior fronto-occipital fasciculus L:1.72625
Inferior fronto-occipital fasciculus R:1.5613
Inferior longitudinal fasciculus L:1.51863
Inferior longitudinal fasciculus R:0.703462
Superior longitudinal fasciculus L:2.59552
Superior longitudinal fasciculus R:1.42251
Uncinate fasciculus L:0.566331
Uncinate fasciculus R:0.211678
Superior longitudinal fasciculus (temporal part) L:1.14275
Superior longitudinal fasciculus (temporal part) R:0.46396
If I would like to report on
Tract name, percentage involved, cluster size and p-value PER TRACT
what would be the best way to do it?
Thank you very much,
Bonnie
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