Abstract
There exist a large variety of data formats used in medical imaging in general and specifically for functional magnetic resonance imaging, diffusion-weighted imaging, or multiparameter mapping. Medical imaging data typically contain the actual data and additionally some metadata. This may be the data dimensionality, the spatial extension of the imaged voxel, but also physical parameters of the image acquisition, or patient data. The way this is stored in the different data formats differs. Here, we discuss DICOM\(^\circledR \), ANALYZE, and NIfTI formats as they are widely used for storing medical imaging data or analysis results that are interchangeable between different analysis software. We demonstrate how these data can be easily accessed from within R. This is amended with a short discussion of the Brain Imaging Data Structure (BIDS) standard.
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Notes
- 1.
DICOM is the registered trademark of the National Electrical Manufacturers Association for its standards publications relating to digital communications of medical information.
- 2.
We use function rimage from adimprowhich is a wrapper to image to avoid excessive parameter specifications.
- 3.
If appropriate! There are, e.g., entries in the metadata section that refer to the data range, like dscal_min; these are set accordingly.
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© 2019 Springer Nature Switzerland AG
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Polzehl, J., Tabelow, K. (2019). Medical Imaging Data Formats. In: Magnetic Resonance Brain Imaging. Use R!. Springer, Cham. https://doi.org/10.1007/978-3-030-29184-6_3
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DOI: https://doi.org/10.1007/978-3-030-29184-6_3
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Publisher Name: Springer, Cham
Print ISBN: 978-3-030-29182-2
Online ISBN: 978-3-030-29184-6
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