| Deletions are marked like this. | Additions are marked like this. |
| Line 5: | Line 5: |
| FreeSurfer now automatically runs automated labeling of the brain volume and this is included in the BasicReconstruction workflow. Each voxel in the normalized brain volume is assigned one of about 40 labels, including: | FreeSurfer now automatically runs automated labeling of the brain volume and this is included in all versions of the September 2005 FreeSurfer. Each voxel in the normalized brain volume is assigned one of about 40 labels, including: |
| Line 10: | Line 10: |
| However, if you processed your anatomical data using the HistoricalReconstruction workflow, you must run the subcortical segmentation separately if you wish to obtain the automated labels. | However, if you processed your anatomical data using previous versions, you can just run the subcortical segmentation separately if you wish to obtain the automated labels. |
| Line 13: | Line 13: |
[wiki:FreeSurferWorkFlows top] | [wiki:HistoricalReconstruction previous]
FreeSurfer Subcortical Segmentation
FreeSurfer now automatically runs automated labeling of the brain volume and this is included in all versions of the September 2005 FreeSurfer. Each voxel in the normalized brain volume is assigned one of about 40 labels, including:
Cerebral White Matter, Cerebral Cortex, Lateral Ventricle, Inferior Lateral Ventricle, Cerebellum White Matter, Cerebellum Cortex, Thalamus, Caudate, Putamen, Pallidum, Hippocampus, Amygdala, Lesion, Accumbens area, Vessel, Central Diencephalon Third Ventricle, Fourth Ventricle, Brain Stem, Cerebrospinal Fluid
However, if you processed your anatomical data using previous versions, you can just run the subcortical segmentation separately if you wish to obtain the automated labels.