MRIaggr-plotLesion3D: 3D plot of the lesion

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

Description

Make a 3D plot of the lesion. (experimental version)

Usage

## S4 method for signature 'MRIaggr'
plotLesion3D(object, mask, edge = FALSE, Neighborhood = "3D_N6",
         numeric2logical = FALSE, spatial_res = c(1,1,1), xlim = NULL,
         ylim = NULL, zlim = NULL, type.plot = "shapelist3d", px_max = 10000,
         radius = 1, type = "s", col = "red", col.edge = "black")

Arguments

object	an object of class MRIaggr. REQUIRED.
mask	the binary contrast parameter indicating the lesion. character. REQUIRED.
edge	should the edges of the lesion be ploted instead of the core ? logical.
Neighborhood	the type of neighbourhood used to defined the edges. character.
numeric2logical	should mask be convert to logical ? logical.
spatial_res	a dilatation factor for the coordinates. positive numeric vector of size 3.
xlim	the x limits of the plot. numeric vector of size 2 or NULL leading to automatic setting of the x limits.
ylim	the y limits of the plot. numeric vector of size 2 or NULL leading to automatic setting of the y limits.
zlim	the z limits of the plot. numeric vector of size 2 or NULL leading to automatic setting of the z limits.
type.plot	the type of plot to be displayed. Can be "plot3d" or "shapelist3d".
px_max	the maximum number of points that can be ploted. integer.
radius	the radius of spheres. numeric. See plot3d for more details.
type	the type of item to plot. character. See plot3d for more details.
col	the color of the core of the lesion. character.
col.edge	the color of the edge of the lesion. character.

Details

ARGUMENTS:
the Neighborhood argument can be a matrix or an array defining directly the neighbourhood to use (i.e the weight of each neighbor) or a name indicating which type of neighbourhood should be used (see the details section of initNeighborhood).

FUNCTION:
This functions uses the plot3d or shapelist3d and thus require the rgl package to work. This package is not automatically loaded by the MRIaggr package.

Value

None.

Examples

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

## Not run: 
if(require(rgl)){
  # global view
plotLesion3D(MRIaggr.Pat1_red, mask = "MASK_T2_FLAIR_t2", spatial_res = c(1.875,1.875,6),
     numeric2logical = TRUE)

  # by slice
plotLesion3D(MRIaggr.Pat1_red, mask = "MASK_T2_FLAIR_t2", spatial_res = c(1.875,1.875,6),
     type.plot = "plot3d",
     numeric2logical = TRUE)
}

## End(Not run)

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