====== Atlas_index-anatomical_label mapping =====

1	Left Hippocampus
2	External Capsule
3	Left Caudate Putamen
4	Left Ant Commissure
5	Left Globus Pallidus
6	Left Internal Capsule
7	Left Thalamus
8	Left Cerebellum
9	Left Superior Colliculi
10	Ventricles
11	Left Hypothalamus
12	Left Inferior Colliculi
13	Left Central Gray
14	Left Neocortex
15	Left Amygdala
16	Left Olfactory bulb
17	Brain Stem
18	Left Rest of Midbrain
19	Left Basal Forebrain Septum
20	Left Fimbria
21	Right Hippocampus
22	None (Right External Capsule label merged into label 2, covering the entire Corpus Callosum region)
23	Right Caudate Putamen
24	Right Ant Commissure
25	Right Globus Pallidus
26	Right Internal Capsule
27	Right Thalamus
28	Right Cerebellum
29	Right Superior Colliculi
30	None (Right Ventricles label merged with label 10)
31	Right Hypothalamus
32	Right Inferior Colliculi
33	Right Central Gray
34	Right Neocortex
35	Right Amygdala
36	Right Olfactory bulb
37	None (Right Brain Stem label merged with label 17)
38	Right Rest of Midbrain
39	Right Basal Forebrain Septum
40	Right Fimbria

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The left/right hemisphere is separated using automatic mirroring/registration method.
The left/right part of the ventricles (10/30), brain stem (17/37) and External Capsule (2/22) as they're usually not considered as anatomically separable.