External Email - Use Caution

Hi Ricardo,

For various reasons, this was never incorporated into FreeSurfer.

But you can see the instructions here on how to generate the annot in the individual subject native space: https://secure-web.cisco.com/1-Lh57J3Z9FOx9JwTNS4-BU2K0FotqC5GmQozJGwZo6aDeS...

After you have the annot, you can run mris_anatomical_stats ( https://secure-web.cisco.com/1U2OrEatFFH5IdBqmpGFrYFMqQIN_C0VrhespawJ154Wdx3...).

Regards, Thomas

On Thu, Sep 1, 2022 at 3:39 PM Riccardo Iandolo riccardo.iandolo@gmail.com wrote:

    External Email - Use Caution

Dear Freesurfer users,

I'm looking for a follow-up to the following thread:

*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1JnA1EMVhOJJyBHCoOygXBKQK-qi-iC1WstrhA8LK--WvM2... https://secure-web.cisco.com/1CwBvdV81hlu3V-nr4FFAU9BtvPdQA7xOATLE9DZ90A1TRYM-4EQNddbAzkoxDdIZG3qiZBq1mGoxmub6AYx2uufL4iZsS01jScD5ZFnqpnd-T_c8TW3HftCP1I0DEuSlG1lsBm9R4uVkaU4LJxGFzESpY95HOkKbyPsfsVLEVkAw4mlj0PVqvW7IUTZDOOW0qiN4ummGl1i7kdmyBAhUur7B1pSQ_MHFrcUg_ptmDECtwSvExQRFdtAtzCOnYN7wi_CemyUDyrDCHyjbNwItaVmQPZ4o0QYitoTPdUbhZEG5uyn3Gkb7kvXHsHkLzg28Anw1harmu70qP-7QGBbRog/https%3A%2F%2Fwww.mail-archive.com%2Fsearch%3Fl%3Dfreesurfer%40nmr.mgh.harvard.edu%26q%3Dsubject%3A%2522%255C%255BFreesurfer%255C%255D%2BUsing%2BSchaefer%2B2018%2Batlas%2Bwith%2BFreeSurfer%2522%26o%3Dnewest%26f%3D1

It seems that some developments were going one at that time in order to make this additional feature.

If not, are there any suggestions on how I can proceed? My goal is to evaluate thickness in the areas of the Shaefer atlas (e.g. 200 Parcels, 17 networks). I would like to use freesurer instead of other methods, because I've already run recon-all on my subjects

I also found these two threads and I followed them:

*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1SgB0VEEmgindAQQTcpG4tNTEGUYcTmu7H6GLSI4zXGv9-B... https://secure-web.cisco.com/18ThCQthzRDLUIFuFhE3YIwmFpsZmPh1YYNCGMJ2pk946QLNHHHhaUAhqwOSsrgeSkwTAS3q8MEa8GqeECSB1twTuYCw6Xhz4Gu8nsEbfzMv1rnIBueJ5W9f1EpANoXXCrGO7efuwvg6hRkzLhK7qKK8fc9x5cqXrybOoG_kc4i4_kOZBDhVRQU01zYn9g7Rvc9Wubt1NoN57d3L-vHXkF-4TXnvrhRx1DYdnDkSSrM5ninjG5T8deQtC33SfSWlonHmQaSxwC2wLSkuOBBA08ZO_u4CCfbzGzK9tWMRac64o1eH8-BN0IfxARwNSBo-4OUkG-W7EkUxDg1si16lSSA/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg64872.html

*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1zhzzTX3wH0XQo_ckK626jveUBEcMu54ZYon47rCRfqUA0w... https://secure-web.cisco.com/1LlRbEwO6izBxoa40Ec6gp9DEucysGSq1sGJtDzjPgkGsQjuasuLLdkfvTDskvsstFZWQ7xSr21RJHxZ-tm-VnzRXSGEUlI3fzzkrlvwgluVn1G2jkullZt3CFtWcat7C4pTA8TN5ue_6ApIj-7mH5L7Seau5jVzX_NKHYJjDuOS8nHVLtkWyhfbjTcoXfVtYlM0TtW5en8-RlXU-zLULp8jn2uOd43W_Hyi6WTy87YmZnYRhGJVahGb8dJrKyJf453C1wHCZ7RLNQbTqZxdxsIeScJChr7oJ_cgRJyyQTEPgHl5Zzga6AAkh1xekxLqtVtIT8JqQemYSLs90MbTfVg/https%3A%2F%2Fgithub.com%2FThomasYeoLab%2FCBIG%2Ftree%2Fmaster%2Fstable_projects%2Fbrain_parcellation%2FSchaefer2018_LocalGlobal%2FParcellations%2Fproject_to_individual

*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1hLYMnnsk7oRf-nrk1TWDWLEzpws1Zifb8wcaHI3Th8L-As... https://secure-web.cisco.com/1asVqnAkeW3NaKs3L475aFajf436YyeOdGEa_14PcTHgCRwDm_yJHdCS2_XKh6EaD3y6rF8yNWVVDCFtZP5z3jhRbt5ZYZ1T864k30g8GeyHHovL4FivP990cU-Oh5XuHIWdpXdKLiv6Fs1P6uu803eKi8LQiitWTI6bhs19seDicjuPlz2hbZpRwORME9zImkisQgrh2q_4q47rXnrI_y7LS2_ZVY_sO_l37gSWl54qmInN5lJJHRH8uI91gewb93IxnxO4nRPXgV7tUsfNbv8Z-jvCd5JqSd6eWrHc1KMxhJxoe0XPCWzv3yasSPDTwRDGrlja_-TwTIiAiMcuZ_g/https%3A%2F%2Fwww.dropbox.com%2Fs%2F1vk6zjus5nogd0z%2Fgcs_Schaefer2018_update20190916.zip%3Fdl%3D0%26file_subpath%3D%252Fgcs

However, these informations have not been very helpful because the .annot file (derived from gcs files) doesn't contain any surface information.

Thank you in advance for any help.

Best,

Riccardo

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