---------- Forwarded message ---------- From: QQ Liu qqliu16@gmail.com Date: 2009/9/10 Subject: About the workflow of cortical thickness measurement. To: fischl@nmr.mgh.harvard.edu

Hi Bruce,

I want to do the cortical thickness measurement and I'm not sure the workflow in FreeSurfer commands in detail, because I'm a new hand to do fMRI processing and don't know anything about brain images before.

Now for example, I have some subjects in two groups and there are 10 subjects in each group. I want to do the cortical thickness comparison between them. Do the workflow as follows?

First, I run the "recon-all -s subjid -all" for every subject(then that needs 20times). Second, do group analysis with the thickness files? Can I run the group analysis automatically?

There are something I want to clearly know: What functions should I use to get the average thickness of each group? Is there a simple function to do the work automatically? Is there a function to plot the subjects as a dot in a image and a curve to separate them?

I'm looking forward to your response. I much appreciate your help.

Thanks a lot.

------------------------ Best wishes.

Q.Q Liu

+8613426232824

qqliu16@gmail.com