dti: Analysis of Diffusion Weighted Imaging (DWI) Data

Diffusion Weighted Imaging (DWI) is a Magnetic Resonance Imaging modality, that measures diffusion of water in tissues like the human brain. The package contains R-functions to process diffusion-weighted data. The functionality includes diffusion tensor imaging (DTI), diffusion kurtosis imaging (DKI), modeling for high angular resolution diffusion weighted imaging (HARDI) using Q-ball-reconstruction and tensor mixture models, several methods for structural adaptive smoothing including POAS and msPOAS, and a streamline fiber tracking for tensor and tensor mixture models. The package provides functionality to manipulate and visualize results in 2D and 3D.

Author
Karsten Tabelow [aut, cre], Joerg Polzehl [aut], Felix Anker [ctb]
Date of publication
2016-10-10 13:51:51
Maintainer
Karsten Tabelow <karsten.tabelow@wias-berlin.de>
License
GPL (>= 2)
Version
1.2-6.1
URLs

View on CRAN

Man pages

awssigmc
Estimate noise variance for multicoil MR systems
colqFA
FA map color scheme
combineDWIdata
Combine two objects of class "dtiData")
dkiTensor-methods
Diffusion Kurtosis Imaging (DKI)
dti-class
Class "dwi"
dtiIndices-methods
Methods for Function 'dtiIndices' in Package 'dti'
dti-package
Analysis of diffusion weighted imaging (DWI) data
dti.smooth-methods
Methods for Function 'dti.smooth' in Package 'dti'
dtiTensor-methods
Methods for Function 'dtiTensor' in Package 'dti'
dwiMD-methods
Methods for Function 'dwiMD' in Package 'dti'
dwiMixtensor-methods
Methods for Function 'dwiMixtensor' in Package 'dti'
dwiQball-methods
Methods for Function 'dwiQball' in Package 'dti'
dwiRiceBias-methods
Correction for Rician Bias
dwi.smooth-methods
Smooth DWI data
dwiSqrtODF-methods
Methods for positive definite EAP and ODF estimation in...
extract-methods
Methods for Function 'extract' and '[' in Package 'dti'
getmask-methods
Methods for Function 'getmask' in Package 'dti'
getsdofsb-methods
Estimate the noise standard deviation
medinria
Read/Write Diffusion Tensor Data from/to NIFTI File
optgrad
Optimal gradient directions
optgradients
Optimal gradient directions for number of gradients between 6...
plot-methods
Methods for Function 'plot' in Package 'dti'
pmatrix
Parallelize columnwise computations on a matrix using forking...
polyeder
Polyeders derived from the Icosahedron (icosa0) by sequential...
print-methods
Methods for Function 'print' in Package 'dti'
readDWIdata
Read Diffusion Weighted Data
sdpar-methods
Methods for Function 'sdpar' in Package 'dti'
show3d-methods
Methods for Function 'show3d' in Package 'dti'
showFAColorScale
Writes an image with the colqFA colorscale to disk.
show-methods
Methods for Function 'show' in Package 'dti'
subsetg
Create an objects of class "dtiData" containing only a subset...
summary-methods
Methods for Function 'summary' in Package 'dti'
tracking-methods
Methods for Function 'tracking' in Package 'dti'

Files in this package

dti
dti/inst
dti/inst/rcode
dti/inst/rcode/generatedata2.r
dti/inst/rcode/generatedata3.r
dti/inst/rcode/mousecallbacks.r
dti/inst/rcode/smse3_tests.r
dti/inst/rcode/createpolyeders.r
dti/inst/rcode/generatedata.r
dti/inst/rcode/gen_mixtens.r
dti/inst/rcode/create_data_from_mtobj.r
dti/inst/CITATION
dti/inst/dat
dti/inst/dat/S0ofFA.txt
dti/inst/dat/b-directions.txt
dti/inst/dat/hardi-grad.txt
dti/src
dti/src/esiglike.f
dti/src/Fiber.cpp
dti/src/Voxel.h
dti/src/bmixtensorpl.c
dti/src/Makevars
dti/src/Fibertracking.cpp
dti/src/nlrdtirg.f
dti/src/tensor.f
dti/src/bessel.c
dti/src/mixtensorpl.c
dti/src/mixtensl.f
dti/src/aniso.f
dti/src/smse3w.f
dti/src/Fibertracking.h
dti/src/Converter.cpp
dti/src/sqrtODF.f
dti/src/Converter.h
dti/src/fibers.f
dti/src/awsvar.f
dti/src/VectorList.cpp
dti/src/Voxel.cpp
dti/src/VectorList.h
dti/src/design.f
dti/src/Fiber.h
dti/src/mixtenbv.f
dti/src/mixtens.f
dti/src/Vector.cpp
dti/src/TrackingInterface.cpp
dti/src/varest.f
dti/src/lmixtensorpl.c
dti/src/tensorc.c
dti/src/show3d.f
dti/src/misc.f
dti/src/init.c
dti/src/dtinraw2.f
dti/src/smse3.f
dti/src/LawsonHansonnnls.f
dti/src/rice.f
dti/src/Vector.h
dti/src/miscmt.f
dti/src/dtifull.f
dti/NAMESPACE
dti/demo
dti/demo/dti_art.r
dti/demo/00Index
dti/demo/mixtens_art.r
dti/data
dti/data/polyeders.rda
dti/data/colqFA.rda
dti/data/optgradients.rda
dti/R
dti/R/smse3misc.r
dti/R/varest.r
dti/R/mixtensnew.r
dti/R/MD.r
dti/R/aws.r
dti/R/plot.r
dti/R/fibers.r
dti/R/misc.r
dti/R/show3d.r
dti/R/Classes.r
dti/R/ricebias.r
dti/R/awsse3ms.r
dti/R/dtijkn.r
dti/R/spherharm.r
dti/R/utilities.r
dti/R/awsse3mswghts.r
dti/R/dtineu.r
dti/R/multishell.r
dti/R/awsse3.r
dti/R/tracking.r
dti/R/improve.r
dti/R/dkimisc.r
dti/R/parallel.r
dti/R/mixtensorpl.r
dti/R/dki.r
dti/R/hardi.r
dti/R/awsse3mstestprop.r
dti/R/aws2.r
dti/R/paramse3.r
dti/R/io.r
dti/MD5
dti/DESCRIPTION
dti/ChangeLog
dti/man
dti/man/summary-methods.Rd
dti/man/colqFA.Rd
dti/man/subsetg.Rd
dti/man/showFAColorScale.Rd
dti/man/dkiTensor-methods.Rd
dti/man/combineDWIdata.Rd
dti/man/sdpar-methods.Rd
dti/man/plot-methods.Rd
dti/man/getmask-methods.Rd
dti/man/dwiSqrtODF-methods.Rd
dti/man/polyeder.Rd
dti/man/dwiMD-methods.Rd
dti/man/show3d-methods.Rd
dti/man/dtiTensor-methods.Rd
dti/man/dwiMixtensor-methods.Rd
dti/man/optgrad.Rd
dti/man/dwi.smooth-methods.Rd
dti/man/dtiIndices-methods.Rd
dti/man/extract-methods.Rd
dti/man/dwiRiceBias-methods.Rd
dti/man/dti.smooth-methods.Rd
dti/man/pmatrix.Rd
dti/man/dti-class.Rd
dti/man/print-methods.Rd
dti/man/optgradients.Rd
dti/man/getsdofsb-methods.Rd
dti/man/readDWIdata.Rd
dti/man/dti-package.Rd
dti/man/dwiQball-methods.Rd
dti/man/tracking-methods.Rd
dti/man/awssigmc.Rd
dti/man/medinria.Rd
dti/man/show-methods.Rd