dkiTensor-methods: Diffusion Kurtosis Imaging (DKI)

In neuroconductor/dti: Analysis of Diffusion Weighted Imaging (DWI) Data

Description

These methods estimate, in each voxel, the diffusion kurtosis tensor (and the diffusion tensor) and some scalar indices.

Usage

  ## S4 method for signature 'dtiData'
dkiTensor(object, method=c("CLLS-QP", "CLLS-H", "ULLS", "QL", "NLR"),
                   sigma=NULL, L=1, mask=NULL,
                   mc.cores=setCores(, reprt=FALSE), verbose=FALSE)
  ## S4 method for signature 'dkiTensor'
dkiIndices(object, mc.cores=setCores(, reprt=FALSE),
                   verbose=FALSE)

Arguments

object	Object of class "dtiData"
method	Method for tensor estimation. May be "CLLS-QP" for a qudratic programm solution for the constrained optimization (requires package quadprog), "CLLS-H" for a heuristic approximation described in Tabesh et al. (2011), or "ULLS" for an unconstrained linear least squares estimation. "QL" and "NLR" correspond to the use of unconstrained quasi-likelihood and nonlinear regression, respectively.
sigma	Scale parameter of intensity distribution (unprocessed). Used with method="QL" in the calculation of the expected intensity values.
L	Effective number of coils, 2*L are the degrees of freedom of the intensity distribution (unprocessed). The default corresponds, e.g., to the case of a SENSE reconstruction. Used with method="QL" in the calculation of the expected intensity values.
mask	argument to specify a precomputed brain mask
mc.cores	Number of cores to use. Defaults to number of threads specified for openMP, see documentation of package awsMethods. Not yet fully implemented for these methods.
verbose	Verbose mode.

Value

An object of class "dkiTensor" or "dkiIndices".

Methods

signature(object = "ANY")

Returns a warning

signature(object = "dtiData")

The method "dkiTensor" estimates the diffusion kurtosis model, i.e., the kurtosis tensor and the diffusion tensor.

signature(object = "dkiTensor")

The method "dkiIndices" estimates some scalar indices from the kurtosis tensor. The method is still experimental, some quantities may be removed in future versions, other might be included.

Author(s)

Karsten Tabelow [e-mail]

References

A. Tabesh, J.H. Jensen, B.A. Ardekani, and J.A. Helpern, Estimation of tensors and tensor-derived measures in diffusional kurtosis imaging, Magnetic Resonance in Medicine, 65, 823-836 (2011).

E.S. Hui, M.M. Cheung, L. Qi, and E.X. Wu, Towards better MR characterization of neural tissues using directional diffusion kurtosis analysis, Neuroimage, 42, 122-134 (2008).

J. Polzehl, K. Tabelow (2019). Magnetic Resonance Brain Imaging: Modeling and Data Analysis Using R. Springer, Use R! series. Doi:10.1007/978-3-030-29184-6.

http://www.wias-berlin.de/projects/matheon_a3/

See Also

dtiData, readDWIdata, dtiData, dkiTensor dkiIndices

neuroconductor/dti documentation built on May 20, 2021, 4:28 p.m.