I see now that recon-all produces aparc.DKTatlas+aseg.mgz aparc.a2009s+aseg.mgz aparc+aseg.mgz

Just to clarify, my calculation is based on fsaverage/mri/aparc*.mgz

Yujing

From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Kei Nishimaki Sent: Tuesday, November 21, 2023 11:02 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] How many regions does "aparc.DKTatlas+aseg.mgz" have?

External Email - Use Caution Hi, Yujing

Thank you for reply. It is likely that the version of freesurfer is different. The latest version (7.4.1) output results based on three atlases. MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellationhttps://secure-web.cisco.com/16kyFKZBTTmJxzWlCpHckTWKfW7NeWPN9nduq80zrB4veUgSnqf_Yxf0V4hYrnX-id0bCIWJ9Wu0QjhaC8hGFsvw5fF7iKqEES2iLMyOuqfEuZ-rCPST4Q2uOFdH4SHYh9FXjbp07AstFZ_m_bljkfF7Sw-5BNFgi6ZMtRPb1vXwm1_ADDTJg59U4PKul_eb1xIhJJKpj9VYPCyOQ39gtP_aWXimwq3FgleENUQFx354be1rUU5sVizr9GuCBxDGaaKVW7wGycCcxIwTSjBdBnJAORnbTvvTP_QKN5-83GSW9IGPf9DyxK2vphprk2JiT/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FCorticalParcellation

Thanks, Kei

________________________________ 差出人: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> が Huang, Yujing <YHUANG43@mgh.harvard.edumailto:YHUANG43@mgh.harvard.edu> の代理で送信 送信日?: 2023年11月21日 10:52 宛先: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> 件名: Re: [Freesurfer] How many regions does "aparc.DKTatlas+aseg.mgz" have?

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Hi Kei,

Here is my calculation:

198 aparc.a2005s+aseg.mgz

192 aparc.a2009s+aseg.mgz

114 aparc+aseg.mgz

I can’t find aparc.DKTatlas+aseg.mgz in Freesurfer distribution directory. Is it the same as aparc+aseg.mgz?

Best,

Yujing

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 Kei Nishimaki Sent: Monday, November 20, 2023 5:57 PM To: freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] How many regions does "aparc.DKTatlas+aseg.mgz" have?

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Hello FreeSurfer Developers,

We ran recon-all on a 3D T1-weighted image, by default.

ls *.nii | parallel -?jobs 2 recon-all -s {.} -i {} -all -qcache

Our question is very simple.

How many regions does "aparc+aseg.mgz" and "aparc.DKTatlas+aseg.mgz" and "aparc.a2009s+aseg.mgz" have in each?

We checked the links below. And we want to renumber the region index from 0 as shown in the photo below.

MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI/FreeSurfe...https://secure-web.cisco.com/1fBJMEihMTm8S1YZKy0FxnEoJxLOAxKaZC0-l90ulKxJmiTJlTMxY3q3ryv_7ts1uTTCPQdTCOXuEDbwL3_YFKQ9x83aJYfbcz7J81AdtRga---yQ-peSn5Fsu8zcLmGfTkyEBLwe7jTpR76XJKk8WD2KrGzdLzn-OGCPsb6KrE26Sry5Xtdonatr3zpx1586ZVun-Dfymo1VrwMbfxb50BE9Jrg_eO4NI1aY2u0E2Gb7sy0Z297RPfygrH9Q30T_pzzmgkx2eR0deWv8TDMkcMYeNHWrmhhENpTODcS5c85PLV66Hz7SIC-1D62zGk2eaK5kt2QcMtZN59t4JRmmXw/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FAnatomicalROI%2FFreeSurferColorLUT

However, the number of regions varies slightly depending on the subjects (103~106 in aparc.DKTatlas+aseg.mgz).

Therefore, we want to know the number of regions in three parcellation map.

1) FreeSurfer version: freesurfer-linux-ubuntu20_amd64-7.4.1.tar.gz

2) Linux ~~~ 5.15.0-76-generic #83~20.04.1-Ubuntu SMP Wed Jun 21 20:23:31 UTC 2023 x86_64 x86_64 x86_64 GNU/Linux

[cid:image001.png@01DA1C77.40089080]

Thanks,

Kei