Hi Tamara,

that depends on where you edit. Cross or base or long. Generally when editing in the longitudinal stream you always use the same recon-all command that you used initially, and only replace the -all with the new flag to tell it to start later in the process (here -autorecon2-noaseg ) not sure if you also need to do -autorecon3, probably does not hurt to make sure all steps are run.

Best, Martin

On 30 Jan 2017, at 19:40, Tamara Tavares ttavare@uwo.ca wrote:

Hello,

After I make edits to my aseg output in the longitudinal stream, do I just run the following command to recreate the final volumes:

recon-long -autorecon2-noaseg -subjid <Subj_ID>

I assume the -subjid is the name of the edited time point and <Subj_ID> is the name of the recreated volumes?

Thank you, Tamara _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer