Thanks for pointing that out Kayle! On 10/07/2013 10:40 AM, Kayle Sawyer wrote: > 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 > >
-- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
