Hi John,
I’m assuming all 64 DICOM files are in the same directory.
Which Freesurfer version are you using? If you are using 7.3.2, can you try
mri_convert -dcm2niix to convert those DICOMs? It will use dcm2niix to convert.
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of John Anderson
Sent: Wednesday, March 15, 2023 1:46 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] mri_convert mosaic data
External Email - Use Caution
Dear Freesurfer,
I have ASL DICOM data from a Siemens scanner in mosaic format.
For each subject, there are 64 DICOM files, which consist of both tags and
controls.
I would like to convert each individual DICOM into a separate NIfTI file or a
single 4D NIfTI file ,composed of all 64 dicoms, using the mri_convert.
However, when I use the command mri_convert input_dicom output_nifti, the
output does not seem right, as it only displays one slice in the sagittal and
coronal views. Could you please provide guidance on how to properly convert
these DICOM files using mri_convert?
Thanks very much
John
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