Re: [Freesurfer] howto create a .label files with dilated content

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Thanks for posting back, Bruce.

Mri_label2label -projabs N does work but only dilates normal to a surface. What I'm trying to do is the following. For cortical region X, I want to identify the sub-volume of each adjacent cortical region which is adjacent to region X. The idea is to dilate region X, say 5 mm, and then use sort and uniq to identify the xyz coordinates in the dilated X which are coincident with xyz coordinates in each adjacent region. It doesn't matter if the dilated region X has lots of points in common with region X and I can see a brute force way to do what I want and can write it and contribute it to you if it would be helpful. I was just looking for a freesurfer tool or tool combination which does it. I think the idea of adjacent subregions is a useful one.

From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Fischl, Bruce Sent: Thursday, December 2, 2021 10:00 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] howto create a .label files with dilated content

Hi Don

This is more Doug's domain than mine, but won't mri_label2label do the trick?

Cheers Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Krieger, Donald N. Sent: Thursday, December 2, 2021 8:38 AM To: 'freesurfer@nmr.mgh.harvard.edu' <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] howto create a .label files with dilated content

External Email - Use Caution Hi everyone,

I'm reposting this from November 29 as it hasn't gotten a reply and it hasn't shown up in the archive either so maybe it got lost in the sauce.

I wish to use the "-dilate n" capability of mri_extract_label, mris_label or other tool to dilate a ctx region and end up with an ascii list of xyz coordinates for the expanded points. mri_extract_label appears to only be capable of writing output to .mgz files and I do not find a tool for extracting labels from a .mgz into an ascii .label file. Your direction would be welcome.

Thanks - Don

[cid:image001.jpg@01D7E766.E47F08D0] Don Krieger, Ph.D. Research Scientist Department of Neurological Surgery University of Pittsburgh