You can run preproc-sess like this (don't include -mni305 or -surf)
preproc-sess -per-session -fsd bold -fwhm 5 -s session
mkanalysis-sess -a mains -native -fwhm 5 -fsd bold ...
This will analyze things in the native fmri space. You can then convert
the results to the anatomical space with
mri_vol2vol --reg register.dof6.lta --mov sig.nii.gz --fstarg --o
On 2/7/18 11:32 AM, Tuominen, Lauri Johannes wrote:
> Dear Freesurfers!
> I would like have my fMRI runs in the native T1 volume space and do the first
> level analyses there. I can only find -self flag for surface based analyses
> in preproc-sess. What would be there recommended way to do the analyses in
> the T1 volume space? This is 7T data and I’d like to use the individual
> segmentations as ROIs.
> Thank you so much!
> Lauri Tuominen
> Freesurfer mailing list
Freesurfer mailing list
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.