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-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@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?
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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/CorticalParcellation<https://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-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
<freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
が Huang, Yujing <yhuan...@mgh.harvard.edu<mailto:yhuan...@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.edu<mailto: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-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
<freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
On Behalf Of Kei Nishimaki
Sent: Monday, November 20, 2023 5:57 PM
To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] How many regions does "aparc.DKTatlas+aseg.mgz" have?
External Email - Use Caution
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/FreeSurferColorLUT<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
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