Why not just use the wmparc.mgz created by recon-all? doug

On 05/22/2014 12:04 PM, Andrea Tateo wrote:

Hi FreeSurfer expert,

after that I have used the command "recon-all"

I would like to obtain wm-lh and wm-rh information ( for example wm-lh-bankssts,wm-lh-caudalanteriorcingulate,wm-lh-caudalmiddlefrontal, ...).

I have read that mri_aparc2aseg command can help me, but when I use it I have two problems:

1. When I use the command mri_aparc2aseg --s

subject I obtain as output the image "aparc+aseg.mgz" which contains information only about cortical label.

2. When I use the command mri_aparc2aseg --s subject --a.2005

I get the following message: ERROR: Option --a2005 unknown

Can you help me?

Moreover, the recon-all output in directory /mri is:

aparc.a2009s+aseg.mgz, aparc+aseg.mgz, aseg.auto.mgz, aseg.auto_noCCseg.label_intensities.txt , aseg.auto_noCCseg.mgz aseg.mgz, brain.finalsurfs.mgz, brainmask.auto.mgz, brainmask.mgz, brain.mgz, ctrl_pts.mgz, filled.mgz, lh.ribbon.mgz, mri_nu_correct.mni.log, norm.mgz, nu.mgz, nu_noneck.mgz, orig, orig.mgz, rawavg.mgz, rh.ribbon.mgz, ribbon.mgz, segment.dat , T1.mgz, talairach.label_intensities.txt , talairach.log, talairach_with_skull.log, transforms, wm.asegedit.mgz, wm.mgz, wmparc.mgz , wm.seg.mgz

Do you think that the searched information is here?

Thanks for your help. Best regards,

Andrea

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