Hello FreeSurfer experts,
I am using freesurfer v5.3 on a linux os. I have a few questions regarding individual aseg statistics (volume, intensity) for a subcortical region that is not automatically segmented by freesurfer. Using tkmedit I have manually traced my subcortical ROI and saved it as a label. By looking at the label for each subject (i.e., less <subjid>/label/ROI.label ) I can see how many voxels are included in the label, the coordinates of each voxel in the label and the signal intensity of each of these voxels.
1. Is there anyway to transform the information in my label to individual statistics in a format similar to what I can obtain with the automatic segmentations and asegstats2table? And what additional steps are necessary to accomplish this?
2. Does the volume that was loaded when the label was created have an impact on any of the volume statistics computed? For example, I generated my label on each subject with the orig volume loaded (i.e., tkmedit <subjid> orig.mgz ) - if I label the same voxels on the norm.mgz, will the intensity values generated for each subject be different? And should I have used a different volume to create my labels?
3. In the label, what coordinate system is used to identify the labeled voxels? Are these coordinates in native space?
Thanks, Eileen.
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