Re: [Freesurfer] aparc a2009s stats ROI names don't match ColorLUT for FS 6.0

Hi Don,

Thanks for pointing this out. The stats labels were being taken from an older lookup table embedded in the aparc atlases. Putting together a fix for this in the development version now. If it helps, I've attached updated LUTs as well as a simple 5.3-to-6.0 label name translation table.

best Andrew

________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Tim Schäfer ts+ml@rcmd.org Sent: Tuesday, March 10, 2020 11:29 AM To: Freesurfer support list Subject: Re: [Freesurfer] aparc a2009s stats ROI names don't match ColorLUT for FS 6.0

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Hi,

I also have code that parses the stats files and noticed this a while ago, a short thread is here:

https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg64090.html

Basically just the names changed, the data is identical, so I just adapted my parsing code to check for both naming conventions.

Best,

Tim

On March 6, 2020 at 1:49 AM Don Hagler dhaglerjr@hotmail.com wrote:

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I have recently started using FreeSurfer 6.0 after previously working with 5.3 for several years. I found that the lh.aparc.a2009s.stats files use different ROI names (e.g., G&S_frontomargin) than they did in FS5.3 (G_and_S_frontomargin). However, the FreeSurferColorLUT.txt file still has the old names.

What caused the ROI names to change for the a2009s.stats files? Was the ColorLUT supposed to have been updated but wasn’t? Where do those shorter names come from? Is there already a mapping file for the different versions of the names?

Because some of the parcel names in the stats files no longer match the LUT, my existing code for compiling FreeSurfer results fails to load the results for those ROIs with new names.

I think I can find a work-around for this, such as using a mapping file or a renaming rule applied to the a2009s stats ROI names, before matching to the LUT.

But I thought I would email this list to raise the issue. I searched the archives and didn’t see something similar, so maybe no one else tries to match those names to the LUT.

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