Hi Guang,

it depends what you want. The .gcs file is what we use to generate the automated parcellations. It needs to match the registration that you used to build your template, so the parcellation may not work well for you with your own template

cheers Bruce On Fri, 20 Nov 2009, Guang Zeng wrote:

Hello, there,

I built our own template, and gonna use it to test some subjects. Currently, I have two questions,

(1) How can I use my template, In "recon-all.sh", I found that their two places where ?h.average.curvature.filled.buckner40.tif are called, so I just need to change all the "?h.average.curvature.filled.buckner40.tif" in "recon-all.sh" to "?h.average.curvature.filled.owntemplate.tif", is it correct?

I think I need not do anything to ?h.curvature.buckner40.filled.desikan_killiany.2007-06-20gcs, right? How about RB_all_withskull_2007-08-08.gca?

(2) How can I test if my template is good? I am going to test some subjects using my template and the FS default template, measure the volumes of some ROIS, compare the percentage overlapping ratio and correlation coef, does it sound reasonable?

Thanks a lot! Guang

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