MRIaggr-plotDistClass: Plot the distribution of the contrast parameter

In bozenne/MRIaggr: Management, Display, and Processing of Medical Imaging Data

Description

Distribution of a contrast parameter according to the tissue class.

Usage

## S4 method for signature 'MRIaggr'
plotDistClass(object, param, param.membership, num = NULL,
         bw.adjust = 1, kernel = "gaussian", from = NULL, to = NULL, ylim = NULL,
		 col = 1:6, main = NULL, mgp = c(2,0.5,0), type = "l",
         pch = 20, lwd = 1, x.legend = "topright", y.legend = NULL, cex.legend = 0.8,
         filename = paste(object@identifier, "plotDistClass", sep = "_"), ...)

Arguments

object	an object of class MRIaggr. REQUIRED.
param	the contrast parameter to display. character. REQUIRED.
param.membership	the parameters indicating the probabilistic membership to the tissue classes. character vector.
num	the slices to use. numeric vector or NULL.
bw.adjust	the smoothing bandwidth to use. numeric. See density for more details.
kernel	the smoothing kernel to use. character. See density for more details.
from,to	the left and right-most points of the grid at which the density is to be estimated. numeric or NULL leading to automatic adjustment. See density for more details.
ylim	the y limits of the plot. numeric vector of size 2 or NULL leading to automatic setting of the y limits.
col	the colors with which the distributions will be displayed. character vector.
main	an overall title for the plot. character.
mgp	the margin line for the axis title, axis labels and axis line. positive numeric vector of size 3.
type	the type of plot to display. character. See plot.default for more details.
pch	the symbol with which the distribution will be displayed. positive integer.
lwd	the line width. postive numeric.
x.legend	the x coordinates of the legend. numeric or character.
y.legend	the y coordinates of the legend. numeric or character.
cex.legend	the expansion factor of the legend. positive numeric.
filename	the name of the file used to export the plot. character.
...	additional arguments to be passed to optionsMRIaggr for specifying the graphical parameters.

Details

ARGUMENTS:
Information about the num argument can be found in the details section of initNum.

Information about the lwd argument can be found in par.

Information about the x.legend, y.legend, cex.legend arguments can be found in legend (cex.legend is the cex argument of legend).

Argument(s) ... must correspond to some of the following arguments : height, hemisphere, norm_mu, norm_sigma, path, res, unit width, window.

FUNCTION:
This method relies on the density function.

Value

None.

Examples

## load a MRIaggr object
data("MRIaggr.Pat1_red", package = "MRIaggr")

## display
plotDistClass(MRIaggr.Pat1_red, param = "DWI_t0",
              param.membership = c("MASK_T2_FLAIR_t2"))

# specify the smoothing bandwidth
plotDistClass(MRIaggr.Pat1_red, param = "DWI_t0", bw.adjust = 1,
              param.membership="MASK_T2_FLAIR_t2")

# specify the scale
plotDistClass(MRIaggr.Pat1_red, param = "DWI_t0", bw.adjust = 1,
              from = 200, to = 300, param.membership = "MASK_T2_FLAIR_t2")

# use several classes
## Not run: 	   
plotDistClass(MRIaggr.Pat1_red, param = "TTP_t0", bw.adjust = 2,
              param.membership = c("CSF","WM","GM","MASK_T2_FLAIR_t2"))

plotDistClass(MRIaggr.Pat1_red, param = "DWI_t0", bw.adjust = 2,
              param.membership = c("CSF","WM","GM","MASK_T2_FLAIR_t2"))

## End(Not run)

bozenne/MRIaggr documentation built on May 13, 2019, 1:39 a.m.