You just need to rerun mris_register using the options I included in my previous email. This will recreate the ?h.sphere.reg, after which you can recreate the parcellation Cheers Bruce

From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Fraser Smith Sent: Monday, April 26, 2021 9:33 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Parcellation Error Pre-Post Central Gyrus R but not L Hemisphere

External Email - Use Caution Thanks Bruce - getting back to this after quite some time now. I've managed to make a central sulcus label file following these instructions (turns out the CS was connected to the Post CS) and run it through mris-register.

I had a couple of follow up questions: How can I use the results of the above to create a corrected parcellation? I presume I need to recreate surfaces / labels afterwards - which command should I use for this?

best Fraser

On Fri, Mar 13, 2020 at 2:34 PM Bruce Fischl <fischl@nmr.mgh.harvard.edumailto:fischl@nmr.mgh.harvard.edu> wrote: Hi Fraser

if you look at the mris_register help there is an option to specify a manual label that corresponds to an atlas parcel:

-L <labelfile atlas_gcsa_file label_name> Specify a manual label to align with atlas label <label name>

in the past I have used this to draw a central sulcus and force it to align using the Destrieux atlas (since Desikan/Killiany is gyral). There are some very nice tools in freeview that make this pretty trivial. Overlay sulc on the inflated surface, make sure that the dark gray of the central sulcus (or red) isn't connected to anything else. If it is make a line using the custom fill tool, then fill and save. Once you are familiar with the tools it will take you about 60 seconds

cheers Bruce

On Fri, 13 Mar 2020, Fraser Smith wrote:

    External Email - Use Caution

Hi there

I have a clear parcellation error with one participant who does look to have an atypical structure around the right post-central gyrus (looks split in two).

Both the pre and post central gyri are shifted significantly backwards – but only for the right not the left hemisphere.

I see this has been mentioned before in the archives – but I have been unable to find a fix for this.

Could you provide any tips on what to try? I am using v6.0.0.

Best wishes

Fraser Smith

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