If you want the global thickness for all your subjects in a single table, use asegstats2table, e.g.
aparcstats2table --subjects bert ernie fred margaret --hemi rh --meas thickness --tablefile rh.aparc_stats.txt The first column will be the rh thickness, which you can average with the lh in a spreadsheet. Or, you can use aparcstats2table again with "--meas area", and then in your spreadsheet use the equation you described to give additional weight to the hemisphere with larger area. Because it's in a table, you can then use this as a covariate in your FSGD, but I thought I read that some people do not recommend using global thickness as a covariate. -Kayle > Date: Fri, 04 Oct 2013 19:25:07 -0400 > From: Douglas N Greve <gr...@nmr.mgh.harvard.edu> > Subject: Re: [Freesurfer] Global thickness calculation > To: freesurfer@nmr.mgh.harvard.edu > Message-ID: <524f4e53.3020...@nmr.mgh.harvard.edu> > Content-Type: text/plain; charset=ISO-8859-1; format=flowed > > > you can do something like this > > cd $SUBJECTS_DIR/$subject > > mri_segstats --slabel $subject lh label/lh.cortex.label --i > surf/lh.thickness --id 1 --sum stats/lh.meanthickness.dat > > > On 10/04/2013 05:22 PM, Mollie Bayda wrote: >> Hi, >> I am trying to calculate whole-brain mean cortical thickness in each >> individual subject for correction of regional mean thicknesses. >> I see on the wiki that this is recommended to be done by: >> bh.thickness = (lh.thickness X lh.area) + (rh.thickness X rh.area) / >> (lh.area +rh.area) >> In my table I see lh and rh total area but I do not see lh and rh >> thickness. All I see is mean thicknesses for each region. Are the >> total rh and lh mean thicknesses supposed to appear in the table? >> Thanks! _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
