RNiftyReg: Image Registration Using the 'NiftyReg' Library
Version 2.5.0

Provides an 'R' interface to the 'NiftyReg' image registration tools . Linear and nonlinear registration are supported, in two and three dimensions.

AuthorJon Clayden [cre, aut], Marc Modat [aut], Benoit Presles [aut], Thanasis Anthopoulos [aut], Pankaj Daga [aut]
Date of publication2017-02-04 08:53:09
MaintainerJon Clayden <code@clayden.org>
LicenseGPL-2
Version2.5.0
URL https://github.com/jonclayden/RNiftyReg
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("RNiftyReg")

Getting started

README.md

Popular man pages

buildAffine: Build an affine matrix up from its constituent...
decomposeAffine: Decompose an affine matrix into its constituent...
forward: Extract forward and reverse transformations
halfTransform: Calculate a half transformation
niftyreg: Two and three dimensional image registration
niftyreg.nonlinear: Two and three dimensional nonlinear image registration
similarity: Similarity measures between images
See all...

All man pages Function index File listing

Man pages

affine: Create, test for and print affine matrices
applyTransform: Apply a precomputed transformation
buildAffine: Build an affine matrix up from its constituent...
composeTransforms: Compose transformations
decomposeAffine: Decompose an affine matrix into its constituent...
deformationField: Calculate the deformation field for a transformation
forward: Extract forward and reverse transformations
halfTransform: Calculate a half transformation
invertAffine: Invert an affine matrix
isImage: Test whether an object represents an image
jacobian: Extract a Jacobian determinant map
niftyreg: Two and three dimensional image registration
niftyreg.linear: Two and three dimensional linear image registration
niftyreg.nonlinear: Two and three dimensional nonlinear image registration
readAffine: Read an affine matrix from a file
readNifti: Read a NIfTI-1 format file
reexports: Objects exported from other packages
similarity: Similarity measures between images
writeAffine: Write an affine matrix to a file

Functions

affine Man page
applyAffine Source code
applyTransform Man page Source code
as.array.niftyreg Man page Source code
asAffine Man page Source code
buildAffine Man page Source code
composeTransforms Man page Source code
convertAffine Source code
decomposeAffine Man page Source code
deformationField Man page Source code
dumpNifti Man page
forward Man page Source code
forward.niftyreg Man page Source code
halfTransform Man page Source code
invertAffine Man page Source code
isAffine Man page Source code
isImage Man page Source code
jacobian Man page Source code
ndim Man page
niftyreg Man page Source code
niftyreg.linear Man page Source code
niftyreg.nonlinear Man page Source code
onLoad Source code
pixdim Man page
pixdim<- Man page
pixunits Man page
pixunits<- Man page
print.affine Man page Source code
qform<- Man page
readAffine Man page Source code
readNifti Man page Source code
reexports Man page
retrieveNifti Man page
reverse Man page Source code
reverse.niftyreg Man page Source code
sform<- Man page
similarity Man page Source code
updateNifti Man page
voxelToWorld Man page
worldToVoxel Man page
writeAffine Man page Source code
writeNifti Man page
xform Man page

Files

inst
inst/extdata
inst/extdata/flash_t1.nii.gz
inst/extdata/mni_brain.nii.gz
inst/extdata/house_colour_large.jpg
inst/extdata/control.nii.gz
inst/extdata/house_colour.png
inst/extdata/affine.txt
inst/extdata/epi_t2.nii.gz
inst/extdata/house.png
tests
tests/testthat
tests/testthat/test-15-affine.R
tests/testthat/test-20-niftyreg.R
tests/testthat/flirt.mat
tests/testthat/test-25-transform.R
tests/testthat/test-30-multireg.R
tests/test-all.R
src
src/Makevars
src/DeformationField.cpp
src/RNifti.cpp
src/aladin.cpp
src/reg-lib
src/reg-lib/Kernels.h
src/reg-lib/_reg_aladin_sym.cpp
src/reg-lib/AffineDeformationFieldKernel.h
src/reg-lib/_reg_aladin.cpp
src/reg-lib/cpu
src/reg-lib/cpu/_reg_macros.h
src/reg-lib/cpu/_reg_localTrans_jac.cpp
src/reg-lib/cpu/_reg_globalTrans.cpp
src/reg-lib/cpu/_reg_nmi.h
src/reg-lib/cpu/_reg_localTrans_jac.h
src/reg-lib/cpu/CPUBlockMatchingKernel.h
src/reg-lib/cpu/CPUResampleImageKernel.h
src/reg-lib/cpu/CPUAffineDeformationFieldKernel.cpp
src/reg-lib/cpu/CPUConvolutionKernel.h
src/reg-lib/cpu/_reg_blockMatching.h
src/reg-lib/cpu/CPUOptimiseKernel.h
src/reg-lib/cpu/_reg_tools.cpp
src/reg-lib/cpu/CPUBlockMatchingKernel.cpp
src/reg-lib/cpu/_reg_maths.h
src/reg-lib/cpu/_reg_localTrans_jacobian.cpp
src/reg-lib/cpu/_reg_localTrans.h
src/reg-lib/cpu/_reg_globalTrans.h
src/reg-lib/cpu/_reg_resampling.cpp
src/reg-lib/cpu/_reg_measure.h
src/reg-lib/cpu/CPUOptimiseKernel.cpp
src/reg-lib/cpu/_reg_optimiser.h
src/reg-lib/cpu/CPUKernelFactory.h
src/reg-lib/cpu/CPUKernelFactory.cpp
src/reg-lib/cpu/CPUConvolutionKernel.cpp
src/reg-lib/cpu/_reg_localTrans_regularisation.cpp
src/reg-lib/cpu/_reg_maths.cpp
src/reg-lib/cpu/CPUAffineDeformationFieldKernel.h
src/reg-lib/cpu/_reg_tools.h
src/reg-lib/cpu/_reg_resampling.h
src/reg-lib/cpu/_reg_blockMatching.cpp
src/reg-lib/cpu/CPUResampleImageKernel.cpp
src/reg-lib/cpu/_reg_localTrans.cpp
src/reg-lib/cpu/_reg_maths_eigen.h
src/reg-lib/cpu/_reg_localTrans_regul.h
src/reg-lib/cpu/_reg_maths_eigen.cpp
src/reg-lib/cpu/_reg_optimiser.cpp
src/reg-lib/cpu/_reg_splineBasis.cpp
src/reg-lib/cpu/_reg_splineBasis.h
src/reg-lib/cpu/_reg_localTrans_regul.cpp
src/reg-lib/cpu/_reg_nmi.cpp
src/reg-lib/_reg_f3d2.cpp
src/reg-lib/_reg_base.cpp
src/reg-lib/_reg_f3d2.h
src/reg-lib/_reg_aladin.h
src/reg-lib/_reg_aladin_sym.h
src/reg-lib/_reg_f3d_sym.cpp
src/reg-lib/OptimiseKernel.h
src/reg-lib/_reg_base.h
src/reg-lib/AladinContent.cpp
src/reg-lib/BlockMatchingKernel.h
src/reg-lib/AladinContent.h
src/reg-lib/Platform.cpp
src/reg-lib/ResampleImageKernel.h
src/reg-lib/_reg_f3d_sym.h
src/reg-lib/Platform.h
src/reg-lib/ConvolutionKernel.h
src/reg-lib/_reg_f3d.cpp
src/reg-lib/_reg_f3d.h
src/reg-lib/Kernel.h
src/reg-lib/KernelFactory.h
src/config.h
src/AffineMatrix.h
src/DeformationField.h
src/main.cpp
src/nifti1_io.h
src/f3d.h
src/aladin.h
src/AffineMatrix.cpp
src/f3d.cpp
NAMESPACE
NEWS
R
R/affine.R
R/niftyreg.R
R/nifti.R
R/image.R
R/transform.R
R/zzz.R
README.md
MD5
DESCRIPTION
man
man/applyTransform.Rd
man/composeTransforms.Rd
man/forward.Rd
man/isImage.Rd
man/deformationField.Rd
man/decomposeAffine.Rd
man/niftyreg.nonlinear.Rd
man/readNifti.Rd
man/writeAffine.Rd
man/similarity.Rd
man/jacobian.Rd
man/halfTransform.Rd
man/affine.Rd
man/niftyreg.Rd
man/reexports.Rd
man/readAffine.Rd
man/invertAffine.Rd
man/niftyreg.linear.Rd
man/buildAffine.Rd
RNiftyReg documentation built on May 20, 2017, 12:52 a.m.

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