Hello fsl-users,
I would like to ask a question with respect to the usage of atlasquery since I didn't find that much info neither in its help file nor in the fsl mail list.
You can either use -c or -m as arguments, but not both since one excludes the other.Right?
Correct me if I'm wrong ,the syntax << atlasquery -a "map" -c x,y,z >> gives the percentage of the possibility that this very specific voxel (with coordinates x,y,z) belongs to a specific tissue according to the map used. This is the information that someone can observe through fslview pointing on the specific voxel and having the atlas activated.
When a mask is added i.e <<atlasquery -V -a "MNI Structural Atlas" -m /usr/share/fsl/data/standard/MNI152_T1_1mm_brain.nii.gz >>
The output is the following:
0
Caudate:0.642736
1
Cerebellum:8.74935
2
Frontal Lobe:13.2472
3
Insula:0.663146
4
Occipital Lobe:6.46823
5
Parietal Lobe:9.35302
6
Putamen:0.754439
7
Temporal Lobe:8.15127
8
Thalamus:0.91447
atlasquery finds out the the whole mask (in our case it is the whole MNI152_T1_1mm brain) consists of 8 areas. What do the numbers in each area represent? For instance what caudate: 0.642736 is?
Thank you
Antonios Konstantinos
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