Hello FS experts,
Does anyone have some form of step-by-step instructions on how to do this ?
Thanks so much
Joseph
Brainiac . wrote:
- Hi All,
*>>* I need to classify WM into different lobes (temporal, parietal, *>* frontal, occipital). I tried to do the lobe mapping using *>* parcellations from wmparc.mgz. *>* http://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation http://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation *> >* My problem is the "unsegmented white matter" in wmparc.mgz. My *>* understanding is that these unsegmented areas are classified so *>* because they are beyond 5mm from any pre-classified cortex area. *>>* My questions: *>* (1) So in order to classify "unsegmented WM" into lobes, do I need to *>* take each voxel in the unsegmented WM region and then assign it to the *>* closest cortex area to classify it into respective parcellations. Then *>* re-group into lobes. Is this correct? *
- (2) Are there any tailor made function or any other easier way to do
*>* this? Is there any easier way to segment WM into lobes directly that I *>* have missed? *>>* Thanks, *>* Brain*
You can do this in a couple of steps. First, you'll need to create a lobe annotation. You can do this in 3 ways: 1. mri_annotation2label --lobesStrict 2. mri_annotation2label --lobes 3. Custom: break up annotation and recombine: a. mri_annotation to create separate label files b. mri_mergelabels to create single label files for each lobe label c. mris_label2annot to create the lobe annotation
Next, create the WM segmentation with mri_aparc2aseg, specifying your new lobe annot and adding --labelwm. You can control the distance with --wmparc-dmax
doug