[Freesurfer] eTIV, mri_label_volume, and scale factor

2015-03-12 Thread Colleen Takahashi
Hi, I am trying to eTIV correct the volumetric stats output from recon-all (ie aseg stats and aparc stats). I read the "eTIV-estimated Total Instranial Volume, aka ICV" wiki information, but I still have some questions. 1. Do all structures need to be eTIV corrected? 2. To use mri_label_volum

[Freesurfer] Scale Factor Question

2015-03-17 Thread Colleen Takahashi
Hi FreeSurfer Experts, I am trying to use mri_label_volume to correct for head size differences in volumetric outputs. I know that this command needs a scale factor. Where do I find this scale factor? Is this scale factor different for each participant? I read through the eTIV wiki information

[Freesurfer] Pial and White Matter Bumps

2014-12-08 Thread colleen takahashi
Hello, After running recon-all on one particular participant, there seems to be a tiny hills that extend past the brain in the inflated view. Normally, I notice small imperfections but these seem to be more substantial. I was wondering what I can do to fix these imperfections. I have attached a