dti v1.4.3.1

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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.

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dti

The goal of dti is to provide tools to analysis of Diffusion Weighted Imaging (DWI) Data.

Installation

You can install dti from GitHub with:

# install.packages("devtools")
devtools::install_github("muschellij2/dti")

Functions in dti

Name Description
dti-package dti
dti.options Set and manipulate image orientations for plots.
dwiRiceBias-methods Correction for Rician Bias
dwiMixtensor-methods Methods for Function `dwiMixtensor' in Package `dti'
extract-methods Methods for Function `extract' and `[' in Package `dti'
dwi.smooth-methods Smooth DWI data
dwiSqrtODF-methods Methods for positive definite EAP and ODF estimation in Package dti
dwiQball-methods Methods for Function `dwiQball' in Package `dti'
dtiTensor-methods Methods for Function `dtiTensor' in Package `dti'
dwiMD-methods Methods for Mean Diffusivity 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
polyeder Polyeders derived from the Icosahedron (icosa0) by sequential triangulation of surface triangles
print-methods Methods for Function `print' in Package `dti'
show-methods Methods for Function `show' in Package `dti'
subsetg Create an objects of class "dtiData" containing only a subset of gradient directions.
show3d-methods Methods for Function `show3d' in Package `dti'
showFAColorScale Writes an image with the colqFA colorscale to disk.
plot-methods Methods for Function `plot' in Package `dti'
optgradients Optimal gradient directions for number of gradients between 6 and 162
optgrad Optimal gradient directions
summary-methods Methods for Function `summary' in Package `dti'
tracking-methods Methods for Function `tracking' in Package `dti'
readDWIdata Read Diffusion Weighted Data
sdpar-methods Methods for Function `sdpar' in Package `dti'
dwi-class Class "dwi"
dtiIndices-methods Methods for Function `dtiIndices' in Package `dti'
combineDWIdata Combine two objects of class "dtiData")
dkiTensor-methods Diffusion Kurtosis Imaging (DKI)
colqFA FA map color scheme
dti.smooth-methods Methods for Function `dti.smooth' in Package `dti'
AdjacencyMatrix Create an adjacency matrix from fiber tracking results
awssigmc Estimate noise variance for multicoil MR systems
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Details

Date 2019-11-18
SystemRequirements gsl
LazyData TRUE
License GPL (>= 2)
Copyright This package is Copyright (C) 2005-2019 Weierstrass Institute for Applied Analysis and Stochastics.
URL http://www.wias-berlin.de/research/ats/imaging/
RoxygenNote 6.1.0
NeedsCompilation yes
Packaged 2019-11-18 09:30:01 UTC; polzehl
Repository CRAN
Date/Publication 2019-11-18 16:10:08 UTC

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