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questions > RE: How to convert DCM of 2 directions to 1 NII?
Dec 23, 2019 03:12 PM | Chris Rorden
RE: How to convert DCM of 2 directions to 1 NII?
This is the intended behavior of dcm2niix. It attempts to
losslessly convert your DICOM data into NIfTI images. There are
many coregistration tools (ANTs, FLIRT, 3dAllineate,
SPM, niftyreg, Plastimatch) that are designed to align
NIfTI images. This is beyond the scope of dcm2niix.
I suspect if you have clinical scans with good in-plane resolution but thick distance between slices, the results of averaging a sagittal scan and an axial scan will not be acceptable. If you can set up sequences for future acquisitions, you could use the time required to acquire these two different sequences to acquire a single isotropic sequence. In Siemens terminology, 3D sequences like MP-RAGE, SPACE and 3D dark-fluid (FLAIR) sequences provide isotropic resolution with good SNR in a reasonable scan time.
I suspect if you have clinical scans with good in-plane resolution but thick distance between slices, the results of averaging a sagittal scan and an axial scan will not be acceptable. If you can set up sequences for future acquisitions, you could use the time required to acquire these two different sequences to acquire a single isotropic sequence. In Siemens terminology, 3D sequences like MP-RAGE, SPACE and 3D dark-fluid (FLAIR) sequences provide isotropic resolution with good SNR in a reasonable scan time.
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Title | Author | Date |
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Mavis Zhang | Dec 21, 2019 | |
Chris Rorden | Dec 23, 2019 | |