open-discussion > Dicom to Nifti / dcm2niix / Slice timing
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Nov 27, 2016 12:11 PM | Christian Kaufmann
Dicom to Nifti / dcm2niix / Slice timing
Dear all,
is it possible to include DICOM slice time information (from Siemens MR) in Nifti file header? It might be possible with dcm2niix but I might have missed the right flag. Any advice is highly appreciated, thank you.
Christian
is it possible to include DICOM slice time information (from Siemens MR) in Nifti file header? It might be possible with dcm2niix but I might have missed the right flag. Any advice is highly appreciated, thank you.
Christian
May 27, 2017 11:05 AM | Chris Rorden
RE: Dicom to Nifti / dcm2niix / Slice timing
Hello-
dcm2niix with put the Siemens slice order information into the NIfTI slice_order tag. An exception to this is if your data was acquired with multiband, where the slice order can not be completely described by the 6 slice order options
http://www.mccauslandcenter.sc.edu/crnl/tools/stc
In this case, you can look at the "SliceTiming" field of the BIDS json header to determine the order.
dcm2niix with put the Siemens slice order information into the NIfTI slice_order tag. An exception to this is if your data was acquired with multiband, where the slice order can not be completely described by the 6 slice order options
http://www.mccauslandcenter.sc.edu/crnl/tools/stc
In this case, you can look at the "SliceTiming" field of the BIDS json header to determine the order.
