To whom it may concern among FreeSurfer staff,
My colleagues and I have performed an analysis with FreeSurfer that is under peer review. The reviewer has asked that we detail each atlas relied upon and connect that with each of the statistics that we relied upon in our analysis.
The statistics that we relied upon were the .stats data from each of the following: aparc, aparc.DKTatlas40, aparc.a2009s, BA, BA.thresh, w-g.pct, curv, entorhinal_exvivo, wmparc, aseg.
Obviously we use the Desikan-Killiany-Tourville atlas (and aparc.DKTatlas40 statistics were extracted from that atlas). I know there are other atlases, such as the Destrieux atlas, etc., but I'm not certain which of the above codes were extracted from Destrieux, and which ones were extracted from other atlases (and the names of those other atlases).
We ran a recon-all command for this study, but we only used the statistics outlined above (aparc, aparc.DKTatlas40, etc.). We need a list of all atlases supported with recon-all, and which ones were relied upon to generate each of the statistics codes in the above list.
Perhaps there is a complete list on a website somewhere of all the atlases and which of these .stats codes came from which atlas, but my searches online have not revealed the appropriate website. Could someone answer this question, or direct me to a complete website with all these details?
Thanks so much for your assistance!
Jacob
Hi Jacob,
I hope this page will provide some information you are looking for - https://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation
BA/BA.thresh stats are computed with annotations created from a set of labels included in Freesurfer.
I think by default Freesurfer uses ?h.aparc.annot (Desikan-Killiany cortical atlas) to compute the stats.
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Levman, Jacob Sent: Friday, January 20, 2023 9:27 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] FreeSurfer atlas and statistics question
To whom it may concern among FreeSurfer staff,
My colleagues and I have performed an analysis with FreeSurfer that is under peer review. The reviewer has asked that we detail each atlas relied upon and connect that with each of the statistics that we relied upon in our analysis.
The statistics that we relied upon were the .stats data from each of the following: aparc, aparc.DKTatlas40, aparc.a2009s, BA, BA.thresh, w-g.pct, curv, entorhinal_exvivo, wmparc, aseg.
Obviously we use the Desikan-Killiany-Tourville atlas (and aparc.DKTatlas40 statistics were extracted from that atlas). I know there are other atlases, such as the Destrieux atlas, etc., but I'm not certain which of the above codes were extracted from Destrieux, and which ones were extracted from other atlases (and the names of those other atlases).
We ran a recon-all command for this study, but we only used the statistics outlined above (aparc, aparc.DKTatlas40, etc.). We need a list of all atlases supported with recon-all, and which ones were relied upon to generate each of the statistics codes in the above list.
Perhaps there is a complete list on a website somewhere of all the atlases and which of these .stats codes came from which atlas, but my searches online have not revealed the appropriate website. Could someone answer this question, or direct me to a complete website with all these details?
Thanks so much for your assistance!
Jacob
freesurfer@nmr.mgh.harvard.edu
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Huang, Yujing -
Levman, Jacob