Documentation/Nightly/SlicerApplication/SupportedDataFormat

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File formats supported by Slicer Nightly

Format	File Name Extensions	Read	Write	Module
Scenes				Data
MRML (Medical Reality Markup Language File)	.mrml	yes	yes	MRML file is a xml-formatted text file with scene metadata and pointers to externally stored data files. See Data Model. Coordinate system: RAS
MRB (Medical Reality Bundle)	.mrb, .zip	yes	yes (.mrb extension only)	MRB is a binary format encapsulating all scene data (bulk data and metadata). Internally it uses zip format. Any .zip file that contains a self-contained data tree including a .mrml file can be opened. Coordinate system: RAS
Slicer 2 Scene	.xml	yes	no	xml-formatted text file with scene metadata and pointers to externally stored data files. Coordinate system: RAS
Data collections in XNAT Catalog format (".xcat") or XNAT Archive format (".xar")	.xcat	yes	no
Data collections in XNAT Archive format (".xar")	.xar	yes	no
Raster Images this includes 2D and 3D images, and more complicated types such as DWI or DTI				Volumes
DICOM	.dcm ...	yes	no	DICOM, DICOMToNRRDConverter, CreateDICOMSeries, Reporting extension. Coordinate system: LPS (specified by the DICOM standard)
NRRD	.nrrd, .nhdr	yes	yes	Coordinate system: as defined in the file header (usually LPS)
MetaImage	.mhd, .mha	yes	yes	Coordinate system: LPS (orientation information in the file header is ignored)
VTK	.vtk	yes	yes	Coordinate system: LPS
Analyze	.hdr, .img, .img.gz	yes	yes
NifTI	.nia, .nii, .nii.gz	yes	yes
BMP	.bmp	yes	yes
BioRad	.pic	yes	yes
Brains2	.mask	yes	yes
GIPL	.gipl .gipl.gz	yes	yes
JPEG	.jpg, .jpeg	yes	yes
LSM	.lsm	yes	yes
PNG	.png	yes	yes
Stimulate	.spr	yes	yes
TIFF	.tif, .tiff	yes	yes
MGH-NMR	.mgz	yes	yes
MRC Electron Density	.mrc, .rec	yes	yes
Models				Models
VTK Polygonal Data	.vtk	yes	yes	Coordinate system: RAS
VTK XML Polygonal Data	.vtp	yes	yes	Coordinate system: RAS
STL	.stl	yes	yes	Coordinate system: RAS
OBJ	.obj	yes	no
Freesurfer	.orig, .inflated, .sphere, .white, .smoothwm, .pial	yes	no
Others (to be tested)	.g, .byu	yes	no
Fiducials				Markups
CSV	.fcsv	yes	yes	Coordinate system: RAS
Text	.txt	yes	yes	Coordinate system: RAS
Rulers				Annotations
CSV	.acsv	yes	yes	Coordinate system: RAS
Text	.txt	yes	yes	Coordinate system: RAS
Transforms				Transforms
ITK Transform	.tfm, .txt	yes	yes	For linear and b-spline transforms. Coordinate system: LPS
Matlab MAT-File	.mat	yes	yes	For linear and b-spline transforms. Coordinate system: LPS
Displacement field	.nrrd, .nhdr, .mha, .mhd, .nii, .nii.gz	yes	yes	For grid transform. Coordinate system: LPS
Transfer Functions				Volume Rendering
Volume Rendering properties	.vp	yes	yes
Text	.txt	yes	yes
Lookup tables				Colors
Text	.txt, .ctbl	yes	yes
Double Arrays
CSV	.mcsv	yes	yes
Text	.txt	yes	yes

References

• ITK File Formats