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.

AuthorKarsten Tabelow [aut, cre], Joerg Polzehl [aut], Felix Anker [ctb]
Date of publication2016-10-10 13:51:51
MaintainerKarsten Tabelow <karsten.tabelow@wias-berlin.de>
LicenseGPL (>= 2)
Version1.2-6.1
http://www.wias-berlin.de/research/ats/imaging/

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'

Functions

aflsigmc Man page
afsigmc Man page
[,ANY-method Man page
awslsigmc Man page
awssigmc Man page
colqFA Man page
combineDWIdata Man page
combineFibers Man page
combineFibers,dwiFiber,dwiFiber-method Man page
combineFibers-methods Man page
dkiIndices Man page
dkiIndices,ANY-method Man page
dkiIndices-class Man page
dkiIndices,dkiTensor-method Man page
[,dkiIndices-method Man page
dkiIndices-methods Man page
dkiTensor Man page
dkiTensor,ANY-method Man page
dkiTensor-class Man page
dkiTensor,dtiData-method Man page
[,dkiTensor-method Man page
dkiTensor-methods Man page
dti Man page
dtiData Man page
dtiData-class Man page
[,dtiData-method Man page
dtiIndices Man page
dtiIndices,ANY-method Man page
dtiIndices-class Man page
dtiIndices,dtiTensor-method Man page
[,dtiIndices-method Man page
dtiIndices-methods Man page
dti-package Man page
dti.smooth Man page
dti.smooth,ANY-method Man page
dti.smooth,dtiData-method Man page
dti.smooth,dtiTensor-method Man page
dti.smooth-methods Man page
dtiTensor Man page
dtiTensor,ANY-method Man page
dtiTensor-class Man page
dtiTensor,dtiData-method Man page
[,dtiTensor-method Man page
dtiTensor-methods Man page
dwi-class Man page
dwiFiber-class Man page
dwiMD Man page
dwiMD,ANY-method Man page
dwiMD,dtiData-method Man page
dwiMD,dtiTensor-method Man page
dwiMD-methods Man page
dwiMixtensor Man page
dwiMixtensor,ANY-method Man page
dwiMixtensor-class Man page
dwiMixtensor,dtiData-method Man page
[,dwiMixtensor-method Man page
dwiMixtensor-methods Man page
dwiMtCombine Man page
dwiMtCombine,ANY-method Man page
dwiMtCombine,dwiMixtensor,dwiMixtensor-method Man page
dwiMtCombine-methods Man page
dwiQball Man page
dwiQball,ANY-method Man page
dwiQball-class Man page
dwiQball,dtiData-method Man page
[,dwiQball-method Man page
dwiQball-methods Man page
dwiRiceBias Man page
dwiRiceBias,ANY-method Man page
dwiRiceBias,dtiData-method Man page
dwiRiceBias-methods Man page
dwi.smooth Man page
dwi.smooth,ANY-method Man page
dwi.smooth,dtiData-method Man page
dwi.smooth-methods Man page
dwi.smooth.ms Man page
dwi.smooth.ms,ANY-method Man page
dwi.smooth.ms,dtiData-method Man page
dwiSqrtODF Man page
dwiSqrtODF,ANY-method Man page
dwiSqrtODF,dtiData-method Man page
dwiSqrtODF-methods Man page
extract Man page
extract,ANY-method Man page
extract,dtiData-method Man page
extract,dtiIndices-method Man page
extract,dtiTensor-method Man page
extract,dwiMixtensor-method Man page
extract,dwiQball-method Man page
extract-methods Man page
getmask Man page
getmask,ANY-method Man page
getmask,array-method Man page
getmask,dtiData-method Man page
getmask-methods Man page
getsdofsb Man page
getsdofsb,ANY-method Man page
getsdofsb,dtiData-method Man page
getsdofsb-methods Man page
icosa0 Man page
icosa1 Man page
icosa2 Man page
icosa3 Man page
icosa4 Man page
medinria Man page
MedINRIA Man page
medinria2tensor Man page
[-methods Man page
optgrad Man page
optgradients Man page
plmatrix Man page
plot,ANY-method Man page
plot,dkiIndices-method Man page
plot,dtiData-method Man page
plot,dtiIndices-method Man page
plot,dtiTensor-method Man page
plot,dwiFiber-method Man page
plot,dwi-method Man page
plot,dwiMixtensor-method Man page
plot-methods Man page
pmatrix Man page
polyeder Man page
print,ANY-method Man page
print,dkiIndices-method Man page
print,dkiTensor-method Man page
print,dtiData-method Man page
print,dtiIndices-method Man page
print,dtiTensor-method Man page
print,dwiFiber-method Man page
print,dwi-method Man page
print,dwiMixtensor-method Man page
print,dwiQball-method Man page
print-methods Man page
readDWIdata Man page
reduceFibers Man page
reduceFibers,dwiFiber-method Man page
sdpar Man page
sdpar,ANY-method Man page
sdpar,dtiData-method Man page
sdpar-methods Man page
selectFibers Man page
selectFibers,dwiFiber-method Man page
selectFibers-methods Man page
show3d Man page
show3d,ANY-method Man page
show3d,dkiTensor-method Man page
show3d,dtiData-method Man page
show3d,dtiIndices-method Man page
show3d,dtiTensor-method Man page
show3d,dwiFiber-method Man page
show3d,dwiMixtensor-method Man page
show3d,dwiQball-method Man page
show3d-methods Man page
show,ANY-method Man page
show,dkiIndices-method Man page
show,dkiTensor-method Man page
show,dtiData-method Man page
show,dtiIndices-method Man page
show,dti-method Man page
show,dtiTensor-method Man page
show,dwiFiber-method Man page
show,dwiMixtensor-method Man page
showFAColorScale Man page
show-methods Man page
subsetg Man page
summary,ANY-method Man page
summary,dkiIndices-method Man page
summary,dkiTensor-method Man page
summary,dtiData-method Man page
summary,dtiIndices-method Man page
summary,dtiTensor-method Man page
summary,dwiFiber-method Man page
summary,dwi-method Man page
summary,dwiMixtensor-method Man page
summary,dwiQball-method Man page
summary-methods Man page
tensor2medinria Man page
touchingFibers Man page
touchingFibers,dwiFiber,dwiFiber-method Man page
touchingFibers-methods Man page
tracking Man page
tracking,ANY-method Man page
tracking,dtiIndices-method Man page
tracking,dtiTensor-method Man page
tracking,dwiMixtensor-method Man page
tracking-methods Man page

Files

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

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