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| Remember to set your SUBJECTS_DIR to the directory where your cross sectionals (the different time points collected) are saved, and source the FREESURFER. ---- {{{cd /path/to/your/data |
Remember to set your SUBJECTS_DIR to the directory where your cross sectionals (the different time points collected) are saved, and to source FREESURFER. {{{ cd /path/to/your/data |
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| recon-all -all -subjid tpN | recon-all -all -subjid <tpNid> }}} Second, create your template/base from the tpNs {{{ recon-all -base <templateID> -tp <tp1id> -tp <tp2id> ... -all }}} Finally, create the longitudinals using the template and tpNs. Repeat the steps for all tpNs. The resulting directories will be in the format of tp1id.long.templateID {{{ recon-all -long <tpNid> <templateID> -all |
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Processing your Longitudinal Data
This page will take you through the steps of processing your longitudinal data: first with running the cross sectionals and creating the longitudinals, and then with editing the data and rerunning the different streams with the new edits.
Creating the Longitudinal Data
Remember to set your SUBJECTS_DIR to the directory where your cross sectionals (the different time points collected) are saved, and to source FREESURFER.
cd /path/to/your/data setenv SUBJECTS_DIR $PWD source $FREESURFER_HOME
First, run all your cross sectionals. Run recon-all -all for all tpNs.
recon-all -all -subjid <tpNid>
Second, create your template/base from the tpNs
recon-all -base <templateID> -tp <tp1id> -tp <tp2id> ... -all
Finally, create the longitudinals using the template and tpNs. Repeat the steps for all tpNs. The resulting directories will be in the format of tp1id.long.templateID
recon-all -long <tpNid> <templateID> -all