Dear FreeSurfer team,
1. We're trying to focus our cortical analysis following suggestions here https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg23939.html. The FS ROI tutorial page mentions that labels should be drawn or registered on the fsaverage template; could we then break the fsaverage aparc_annot atlas and combine the fsaverage labels of interest into our new label or should we break each individual subjects aparc_annot atlas and then create the combined ROI from the subject specific labels? I'm assuming that we either way will have to resample the combined label to each subject using mri_label2label? 2. When running the mri_glmfit-sim analysis later on, the thread above mentions not using the --cache option. Can we use "--mczsim 3 pos" instead for a one-sided test?
1. We've had some success in correcting incorrect parcellations using the mris_register and mri_ca_label functions. As we had some issues with mris_register in 7.1.1, we used the developer version for these steps, but 7.1.1 when re-running recon-all as this is the version we used for our study. Is it ok to combine versions like this?
Thank you for your time!
Kind regards,
Carl Trolle Research fellow Spaulding Neuroimaging Lab
Platform: linux-centos7_x86_64-7.1.1-20200723-8b40551 FreeSurfer version: 7.1.1