[Freesurfer] lesion question

2011-07-25 Thread Rebecca McCourt
Hello everyone, I have several patients with large cortical lesions (haemorrhage). I want to have subcortical structure volumes reflect the lesion, i.e. show up as hypointensities in aseg.mgz (which they're not right now). However I also want to calculate cortical thickness, and the WM & GM surfa

[Freesurfer] which files for thickness and volume stats?

2011-07-18 Thread Rebecca McCourt
Hi all, I'm wondering which files I should use to find volumetrics data... I need cortical thickness (whole-brain and each hemisphere), GM/WM volumes (cortical) and whole brain volume. I know about asegstats2table but I read that aseg isn't that reliable for WM/GM. What's the difference between

[Freesurfer] stats files query

2011-07-20 Thread Rebecca McCourt
Hi, I see that some stats files are more reliable than others for certain types of data, for instance I read that aseg isn't that reliable for WM/GM. Which files I should use to find cortical thickness (whole-brain and each hemisphere), GM/WM volumes (cortical) and whole brain volume? What's the