molaR (version 5.3)

DNE3dDiscard: Plot advanced results of a DNE surface analysis

Description

a molaR surface plotting function

Usage

DNE3dDiscard(
  DNE_File,
  baseCol = "gray",
  boundCol = "red",
  outlierCol = "lawngreen",
  concaveCol = baseCol,
  main = "",
  cex = 1,
  cex.main = 2.5,
  legend = T,
  leftOffset = 1,
  fieldofview = 0,
  fileName = NA,
  binary = FALSE
)

Arguments

DNE_File

An object that stores the output of the DNE() function

baseCol

Base color for typical face on surface. Default is gray

boundCol

Color for the boundary faces discarded from the DNE calculation. Default is red.

outlierCol

Color for the faces discarded as outliers from the DNE calculation. Default is lawngreen

concaveCol

Color of the Concave faces on the surface. When left in default concave faces remain undistinguished on the plotted surface and are colored the same as baseCol.

main

string indicating plot title. Defaults to empty

cex

numeric value setting the relative size of the legend, default=1

cex.main

numeric value setting the relative size of the plot title,

legend

Logical indicating whether or not a legend shold be displayed. Default=T

leftOffset

numeric value between -1 and 1 setting the degree of offset for the plotted surface to the left. Larger values set further to right. Default=1

fieldofview

Passes an argument to par3d() changing the field of view (in degrees) of the resulting 3D plot

fileName

String indicating a name to save the plotted surface to as a *.ply file; default of 'NA' will not save a file

binary

Logical indicating whether or not the saved surface plot should be binary, passed to vcgPlyWrite()

Details

This function creates a surface map of the discarded DNE faces. DNE calculations typically discard the top 1 tenth of one percent of faces, associated with extreme pockets and broken parts of surfaces. DNE calculations also typically discard the boundary faces from the calculation, either on the basis of 2 vertices on the boundary, or at least one vertext on the boundary. concaveCol defaults to gray and therefore is turned off. When an alternative color is provided, the function will identify the the areas of the tooth that are concave vs convex.

Details of the other function arguments can be found in the DNE3d() description and identical terms are organized to function the same way.

Examples

DNE_output <- DNE(Tooth)
DNE3dDiscard(DNE_output)