I have a T1 weighted MRI scan and have run the recon-all command on it. For my steps moving forward I need to have 4 layers of tissue i.e. 4 segmentation files - GM, WM, CSF and extra cerebral tissue. Which of the outputs from recon-all will give me the segmentation? I thought at first that brain.mgz was what I needed but having viewed brain.mgz in Freeview, it is just the skull stripped version of the T1 scan. 

Is there any document that details all the outputs of recon-all? 

Many thanks for any advice I can get!

Maheen