Re: [Freesurfer] TRACULA niftii file

Hi Gabor - The input DWIs can be in any format that can be read by mri_convert, including the NIfTI format. The gradient directions should be in voxel coordinates, like the ones used by FSL. I don't have experience with dcm2nii, but if you have original DICOM files, you can pass those as the input, too.

Hope this helps, a.y

On Thu, 10 May 2012, Gabor Perlaki wrote:

Dear all,

Is TRACULA able to handle 4D FSL niftii as input for DTI images? Are bves/bvalues extracted by dcm2nii and MRICro accurate for TRACULA? I think TRACULA needs the bvecs in the image coordinate system, which is not the same as scanner coordinate system in case of oblique acquisition. Do I need to use dcm2nii with correction for slice angulation to