dcm2niix is designed to convert neuroimaging data from the DICOM format to the NIfTI format. The DICOM format is the standard image format generated by modern medical imaging devices. However, DICOM is very complicated and has been interpreted differently by different vendors. The NIfTI format is popular with scientists, it is very simple and explicit. However, this simplicity also imposes limitations (e.g. it demands equidistant slices). dcm2niix is also able to generate a BIDS JSON format sidecar which includes relevant information for brain scientists in a vendor agnostic and human readable form. The Neuroimaging DICOM and NIfTI Primer provides details.
dcm2nii is available on the Pitzer Cluster. The versions currently available at OSC are:
| Version | Pitzer |
|---|---|
| 11_04_2023 | X* |
* Current default version
You can use module spider dcm2nii to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.
All users can use dcm2nii at OSC. If you have any questions, please contact OSC Help.
This software is open source. The bulk of the code is covered by the BSD license. Some units are either public domain (nifti*.*, miniz.c) or use the MIT license (ujpeg.cpp). See the source GitHub repository for more details.