Hi Dan
yes, we typically use -i and read in the dicoms directly, but you can do
it for a nifti also. Or you could create the 001.mgz and not use it, but
there is no reason to (it's just more work).
cheers
Bruce
On Thu, 8 Mar 2018, Levitas, Daniel wrote:
Hello,
I am running recon-all for the first time, and I am wondering when it is proper
to use the -i
option. My current recon-all command includes the -i option: recon-all -i
T1.nii.gz -s 1020 -all,
where T1.nii.gz is a nifti file of all 160 anatomical dicoms. I've seen some
commands like this
however: recon-all -s subjid -all. My question is, is it safer to specify the
input, and if I
choose not to, do I need to create an mri/orig/001.mgz file from mri_convert?
Thank you for the help,
Dan
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
