Usage
## S3 method for class 'dtiData':
plot(x, y, slice=1, gradient=NULL, view= "axial", show=TRUE, density=FALSE, xind=NULL, yind=NULL, zind=NULL, mar=c(3,3,3,.3), mgp=c(2,1,0), ...)
## S3 method for class 'dtiTensor':
plot(x, y, slice=1, view="axial", quant=0, minanindex=NULL, contrast.enh=1, what="FA", qrange=c(.01,.99), xind=NULL, yind=NULL, zind=NULL, mar=c(2,2,2,.2), mgp=c(2,1,0), ...)
## S3 method for class 'dtiIndices':
plot(x, y, slice=1, view= "axial", method=1, quant=0, minanindex=NULL, show=TRUE, density=FALSE, contrast.enh=1, what="FA", xind=NULL, yind=NULL, zind=NULL, mar=c(3,3,3,.3), mgp=c(2,1,0), ...)
Arguments
x
Object of class "dtiIndices", "dtiData" or "dtiTensor"
view
Choose "sagittal", "coronal", or "axial" view here
gradient
Index of data cube to plot. Defaults to the first S0 image.
method
Method for color coding tensor indices.
quant
If is.null(minanindex) specify minanindex as corresponding quantile of the fractal anisotropy (FA) index.
minanindex
Display only information for voxel with FA>minanindex
show
Visualize information in a graphics device (for classes "dtiData" and "dtiIndices" only).
density
Show density of S0(Sb)-values (for class "dtiData") or densities of fractal anisotropy (FA) or geodesic anisotropy (GA) ( for class "dtiIndices").
contrast.enh
Enhance image contrast using min(1,x$anindex/contrast.enh instead of the anisotropy index itself. Effective values are within the interval (0,1).
what
If what="GA" use geodesic anisotropy (GA) instead of fractional anisotropy (FA).
mar
Graphical parameter for par.
mgp
Graphical parameter for par.
qrange
Cut image intensity to these quantiles to avoid that outliers determine the dynamic range of the image.
xind
If provided restrict display to indices specified in xind for x-direction.
yind
If provided restrict display to indices specified in yind for y-direction.
zind
If provided restrict display to indices specified in zind for z-direction.