dicom2nifti: Convert DICOM Header to NIfTI

In neuroconductor-devel-releases/oro.dicom: Rigorous - DICOM Input / Output

Description

A subset of header information from DICOM is placed into NIfTI-1 format.

Usage

dicom2nifti(dcm, datatype = 4, units = c("mm", "sec"),
  rescale = FALSE, reslice = TRUE, qform = TRUE, sform = TRUE,
  DIM = 3, descrip = "SeriesDescription", aux.file = NULL, ...)

Arguments

dcm	DICOM object containing both header and image information.
datatype	is an integer that denotes the type of data contained in each voxel. See convert.datatype or the NIfTI documentation for more details.
units	Spatial and temporal units for xyzt
rescale	Should slope and intercept parameters be extracted from the DICOM headers and saved?
reslice	Logical variable (default = TRUE) indicating if the data volume should be resliced.
qform	Logical variable (default = TRUE) indicating if the 3D image orientation should be used.
sform	Logical variable (default = TRUE) indicating if the 3D image orientation should be used.
DIM	The dimension of the array to be used (default = 3D).
descrip	DICOM header field(s) to be included in the descrip slot for the nifti class object.
aux.file	Character string to be included in the aux_file slot for the nifti class object.
...	Arguments to be passed to nifti

Details

See the references.

Value

An object of class nifti.

Author(s)

Brandon Whitcher [e-mail]

References

Digital Imaging and Communications in Medicine (DICOM)
http://medical.nema.org

NIfTI-1
http://nifti.nimh.nih.gov/nifti-1

See Also

convert.datatype, dicom2analyze, nifti

Examples

## Not run: 
dcmList <- dicomSeparate(system.file("hk-40", package="oro.dicom"))
require("oro.nifti")
dcmNifti <- dicom2nifti(dcmList, datatype=4, mode="integer")
qform(dcmNifti)
sform(dcmNifti)
image(dcmNifti)
orthographic(dcmNifti)

## End(Not run)

neuroconductor-devel-releases/oro.dicom documentation built on May 6, 2020, 4:26 p.m.