Hi Jon

CT doesn't usually provide any gray/white contrast, so I don't think it can work. The dicom issue is a separate one. We should be able to read most dicoms, but of course this is the issue with an "evolving standard".

cheers Bruce On Wed, 28 Jun 2017, John Anderson wrote:

Dear Freesurfer experts, I have T1 images acquired using CT scan not MRI. I have the following questions please:  1. "mri_convert" failed to convert the dicoms to nifti, so I used "dcm2nii" part of mricron to convert the dicoms to nifti. I am wondering if there are any tools in Freesurfer to convert CT scan dicoms to nii or mgz formats 2. Can this type of images be processed in Freesufrer using the traditional pipeline for surfaces reconstruction. I mean using "recon-all"

Thank you for your guidance Jon