average FreeSurfer Volumes
Explore the various atlas, mask and processed structural images obtained from the FreeSurfer cortical morphometrics and reconstruction pipeline.
The volumetric and surface atlases are automatically loaded unto the T1 image. You can select other parcellation schemes and volumes from the File menu.
You can show/hide volumes by clicking on one of the tiles on the top right of the image viewer. See the table below for included files.
Hints) Sometimes a volume does not load with correct brightness/contrast values. You can adjust these by right clicking, holding control and dragging across the image. Use spacebar to cycle through different image views. Scrolling through slices is faster if you hide other overlays.
Image | Filename | Description |
---|---|---|
T1 Weighted Siemens MPRAGE | T1 | High resolution (1x1x1mm voxel size) structural image |
Skull-stripped Brain Mask | brainmask | Automated stripping of skull, neck and non-brain tissue used for all subsequent processing. Manual edits to skull stripping errors will appear as dark blue |
White Matter Tissue Probability Mask | wm | Automatically generated tissue probability map of the white matter |
Volumetric Subcortical Segmentation | aseg | Automatic image segmentation of subcortical structures obtained with a probabilistic classifier trained on a manually labeled dataset. |
Cortical Parcels + Subcortical Segmentation | aparc_aseg | Cortical parcellation labels obtained from the 2006 Deskian-Killiany atlas that are transformed into volume space and superimposed on the volumetric labels |
Volumetric Deskian Killiany Atlas | aparc_DKTatlas_aseg | Just the surface labels from the 2006 Deskian-Killiany atlas |
Volumetric Cortical + Subcortical Segmentation | aparc_a2009s_aseg | The 2009 Destriuex Atlas, a finer grained surface parcellation. |
White Matter Parcellation | wmparc | Atlas of the white matter obtained by labeling voxels with the closest cortical parcel |