it means that an autorecon? was started for that subject and never finished. You should be able to do recon-all -make all -s <subject> and it will redo what it needs to

On Thu, 9 Jul 2009, Kirk Gregory R. wrote:

hi q. from a collaborator,

someone got a comment for 1 subject the # of vertices of sphere file different from the length of thickness data for the same subject.

thanks

Greg.

-----Original Message----- From: Deepti Pachauri [mailto:deepti.pachauri@gmail.com] Sent: Wed 6/24/2009 1:02 AM To: Kirk Gregory R. Subject: Re: Help Deepti with some questions

Dear Greg

I have been looking at FreeSurfer data provided by you for 21 subjects(AD/Control). For P1_AD subject I found the # of vertices of sphere file different from the length of thickness data for the same subject.

# of vertices for P1.AD subject are 131364 and length of thickness data for the same subject is 131215. However for rest 20 subjects # of vertices and length of thickness data are same.

I am using MATLAB to read thickness.asc data and last column is thickness (mm) at given x,y,z. For vertices and faces I am using the standard freesurfer_read_surf.m form http://eeg.sourceforge.net/doc_m2html/bioelectromagnetism/freesurfer_read_su...

I am just wondering how to fix this discrepancy of freesurfer output?

Also thickness data P10 is missing in asc folder. Sphere and pial files are present in surf folder for P10 subject.

Thanks

On Tue, Jun 23, 2009 at 3:55 PM, Vikas Singh vsingh@biostat.wisc.eduwrote:

...

Hi Greg,

Deepti, a new CS grad student (copied on this email) is studying the cortical surface characterization problem, and using the output you generated. Is is possible that you can answer some of her questions regarding FreeSurfer? I am copying her on this email. I am out of town until July 16th, and we wanted to get on top of this over the summers. Please let us know, possibly with a phone number she can reach you at.

regards,

Vikas.