Re: [Freesurfer] How can I increase radius of a binary disk?

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Dear Dr. Douglas N. Greve,

I see. Thanks!

Kind Regards, Andy (Junghyun) Kim ________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@mgh.harvard.edu Sent: Saturday, May 20, 2023 7:08 AM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] How can I increase radius of a binary disk?

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oh, you should have used --fwhm 3 on that first command, and if you want 5mm then use --fwhm 5

On 5/19/2023 7:15 AM, Andy Kim wrote:

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Dear Dr. Douglas N. Greve,

Thanks to you, I could have a binary disk approximately 3mm in radius by the codes you told me (MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/1wUlJQ4uIaCCKMh9cnv1QSFKTfG1tVIqA2Hu1BVMXjeePss...https://secure-web.cisco.com/1z0F3-vP1KDJI6B_AsTyKAaKNmMd0vO7tGkwv_YiAe4mgtFL1QdTiYs_dYZa0SNYmBNh1h2ge_bd6h98_TjHFMZx8lfVf63LrKeca6bpHJqS3efsPrABmWu40PwE_1bXSb2a1Mtv0R2-CjohzV52lOG68h2lN3pBTXfpuar6V01OlX-ZOuMA0aMQl0OxzxU7uGWZRbNeUFiUdR2dqlzLBm98JI_0xPxY7tVbtcYEGfmjJ4NRcdsEjFHhLRp6JVv4h241u3JIeOcZrWmJ69BHaQm7ygPDdDOpDsxQNHVOTHeJVBDigROxNKREccAKsjdVP/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg74761.html):

mri_volsynth --dim-surf fsaverage/surf/lh.white --pdf delta --delta-crsf ${vertexno} 0 0 0 --0 delta.mgh mris_fwhm --i delta.mgh --o delta.sm3.mgh --s fsaverage --hemi lh mri_binarize --i delta.sm3.mgh --min 0.5 --o delta.sm3.bin.mgh

I have sincerely appreciated your help.

Now I'm wondering how to modulate the radius. I guess I can do it by adding --fwhm option to mris_fwhm command, for example: mris_fwhm --i delta.mgh --o delta.sm3.mgh --s fsaverage --hemi lh --fwhm 5 At the end, I will get a binary disk with 5mm in radius. Am I right? And does this mean that --fwhm 3 is default for mris_fwhm? How could you define 3mm?

Kind Regards, Andy (Junghyun) Kim

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