Abstract
Image file format is often a confusing aspect for someone wishing to process medical images. This article presents a demystifying overview of the major file formats currently used in medical imaging: Analyze, Neuroimaging Informatics Technology Initiative (Nifti), Minc, and Digital Imaging and Communications in Medicine (Dicom). Concepts common to all file formats, such as pixel depth, photometric interpretation, metadata, and pixel data, are first presented. Then, the characteristics and strengths of the various formats are discussed. The review concludes with some predictive considerations about the future trends in medical image file formats.
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References
The Encyclopedia of Graphics File Formats. http://www.fileformat.info/mirror/egff/ (accessed in June 2013)
Rosset A, Spadola L, Ratib O: OsiriX: an open-source software for navigating in multidimensional DICOM images. J Digit Imaging 17(3):205–16, 2004
Clunie DA: Lossless compression of grayscale medical images: effectiveness of traditional and state-of-the-art approaches. SPIE-Medical, Imaging, 2000, pp 74–84
Bidgood Jr, WD, Horii SC, Prior FW, Van Syckle DE: Understanding and using DICOM, the data interchange standard for biomedical imaging. J Am Med Inform Assoc 4(3):199–212, 1997
Robb RA, Hanson DP, Karwoski RA, Larson AG, Workman EL, Stacy MC: Analyze: a comprehensive, operator-interactive software package for multidimensional medical image display and analysis. Comput Med Imaging Graph 13(6):433–54, 1989
NIFTI documentation. http://nifti.nimh.nih.gov/nifti-1/documentation (accessed in June 2013)
MINC software library and tools. http://www.bic.mni.mcgill.ca/ServicesSoftware/MINC (accessed in June 2013)
Todd-Pokropek A, Cradduck TD, Deconinck F: A file format for the exchange of nuclear medicine image data: a specification of Interfile version 3.3. Nucl Med Commun 13(9):673–99, 1992
Patel V, Dinov ID, Van Horn JD, Thompson PM, Toga AW: LONI MiND: metadata in NIfTI for DWI. Neuroimage 51(2):665–76, 2010
Andrew J. Hanson. Visualizing Quaternions. Morgan Kaufmann Pub, 2006
Brett M, Johnsrude IS, Owen AM: The problem of functional localization in the human brain. Nat Rev Neurosci 3(3):243–9, 2002
Jenkinson M, Beckmann CF, Behrens TE: Woolrich MW, and Smith SM. FSL. NeuroImage 62(2):782–790, 2012
Ashburner J: SPM: a history. Neuroimage 62(2):791–800, 2012
Cox RW: AFNI: what a long strange trip it's been. Neuroimage 62(2):743–7, 2012
Fedorov A, Beichel R, Kalpathy-Cramer J, Finet J, Fillion-Robin JC, Pujol S, Bauer C, Jennings D, Fennessy F, Sonka M, Buatti J, Aylward S, Miller JV, Pieper S, Kikinis R: 3D Slicer as an image computing platform for the Quantitative Imaging Network. Magn Reson Imaging 30(9):1323–41, 2012
ImageJ—Image processing and analysis in Java. http://rsbweb.nih.gov/ij/ (accessed in June 2013)
Whitcher B, Schmid VJ, Thornton A: Working with the DICOM and NIfTI Data Standards in R. Journal of Statistical Software 44(6):1–29, 2011
Neuroimaging in Python (Nipy project). http://nipy.sourceforge.net/nibabel/ (accessed in June 2013)
The NIFTI-2 header. http://brainmap.wustl.edu/wiki/index.php/Nifti2.h (accessed in June 2013)
Digital Imaging and Communications in Medicine (DICOM) documentation. http://medical.nema.org/standard.html (accessed in June 2013)
Tsalafoutas IA, Metallidis SI: A method for calculating the dose length product from CT DICOM images. Br J Radiol 84(999):236–43, 2011
Channin DS, Mongkolwat P, Kleper V, Rubin DL: The Annotation and Image Mark-up project. Radiology 253(3):590–2, 2009
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The authors acknowledge the support of the Italian Ministry of Instruction, University and Research—Progetti MERIT RBNE08E8CZ and PRIN 2010XE5L2R.
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Larobina, M., Murino, L. Medical Image File Formats. J Digit Imaging 27, 200–206 (2014). https://doi.org/10.1007/s10278-013-9657-9
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DOI: https://doi.org/10.1007/s10278-013-9657-9