External Email - Use Caution
Dear Freesurfer experts,
I am a complete novice analysing brain images and would like to double check if what I have been doing is correct.
1) I ran the recon-all script for the T1 images of all the subjects 2) I ran the aparcstats2table (meas volume) script and the asegstats2table (meas thickness for both hemispheres) to extract the volumes and the thickness information of various regions. 3) Exported the resulting tables to excel (and subsequently to SPSS) for statistical analysis.
Our subjects are children 8-12 years old. According to this information, https://secure-web.cisco.com/1DjimnZeU0HWYyktwcKlLOM5c2t98vyC804Lh_aGhlh_Q1u... perhaps I need to manually edit some of the data that is automatically generated from recon-all? If so, if you could guide me to the relevant guidelines (with details) that will be most greatly appreciated.
Also, as I would like to obtain the volume of anterior cingulate cortex, I included --segno --segno 1002 1026 2002 2026 3002 3023 3026 4002 4026 3201 3203 4201 4203 in the asegstats2table command as I thought the corresponding regions and their ID can be found on this list https://secure-web.cisco.com/1yGAjLK_b5XwLg1HBgql1vPDqiO5rhoboItkqiQ2I-zOhpa... https://secure-web.cisco.com/1yGAjLK_b5XwLg1HBgql1vPDqiO5rhoboItkqiQ2I-zOhpaeYthke_wLKJk1hmoFF5DMDJJI_T70wrI8dPWGUNwtqQBM8Cd6MdZ0drMh66M3Dgetfgee24EPfM_rJEoM3DU_Jf_PB_bxAOob5sw9iCZ_p9EyT61yMJmt3LoUxg76ro5dg4gDf_KT8kmUi7SNg6Nyi-xcXL0dIugCV8elHep3U9Ip28Hryt5CNuPhJnrrX4blxKbiET5poPQ_zsrGngSaUSi_OZ1WvzEcP6cClGZJWLyCFkfYaaZS_rgxpE0P22q3FCG60ZMrZoyhm-lJ667vgJ-EEgjGlV-Ou9qbIFA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FAnatomicalROI%2FFreeSurferColorLUT However, I have an error message saying " cannot find the corresponding segmentation for the id:1002 you provided in any of the .stats files parsed"
Do I first need to label these specific regions of interest? If you could point me to the right direction, it will be most greatly appreciated.
Thank you in advance.
Kind regards, Rio ============================================== Rio Yamaguchi [PhD Candidate] yamaguchi-rio@g.ecc.u-tokyo.ac.jp University of Tokyo Department of Child Neuropsychiatry,
==============================================