Hi Freesurfer group, I wanted to use mris_preproc to calculate regional differences in surface area between two groups.
Ideally I would like to use something that is vertex-wise and preserves regional area, but I've had trouble with spherical demons (using the Winkler methodology). So I am going to first try using mris_preproc (and compare the two methods). I found this old thread suggesting that I should use the --area flag. But I had some questions: 1) Which surfname should I use with the --area flag? area.mid vs area.pial vs any other file 2) Should I use --meas flag in addition and if so which one? (similar to how --meas thickness is used for calculating cortical thickness) 3) Which --surfreg file should I use? sphere.reg vs sphere. Or do I not need the --surfreg? Thanks, Abid ---------- Forwarded message ---------- From: Anderson M. Winkler <wink...@fmrib.ox.ac.uk> Date: Tue, May 14, 2013 at 1:19 AM Subject: Re: [Freesurfer] Usage of --area option in estimating the vertex-wise maps of surface area To: free <freesurfer@nmr.mgh.harvard.edu> Hi Xi-Nian, As Doug said, they don't do the same thing. The method in the paper uses a different kind of interpolation to allows the preservation of the amount of area, whereas mris_preproc achieves the same globally using a Jacobian correction. The results aren't expected to be identical at the vertex level or for small regions. An implementation of the method we proposed in the paper is available for Octave and/or Matlab at http://brainder.org/download/areal It works fine, but beware that it's quite slow. All the best, Anderson 2013/5/13 Douglas Greve <gr...@nmr.mgh.harvard.edu> > > > Hi Xi-Nian, it does not do the same thing, but it does something similar. Anderson found that it gave similar results in a lot of cases, but he has found some differences. If he's still following the FS list, maybe he can comment. > > doug > > > > > > On 5/11/13 9:53 PM, Xinian Zuo wrote: > > Hello Doug, > > I am doing some association studies between functional measures and surface area. In using mris_preproc, there is an option --area. Does this do sth similar to that as Winkler et al. (2012)? > > Winkler et al., 2012. Measureing and comparing brain cortical surfacearea and other areal quantities. > > Thank you very much. _______________________________________________ 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.
