deformGrid2d: visualise differences between two superimposed sets of 2D...

In Morpho: Calculations and Visualisations Related to Geometric Morphometrics

visualise differences between two superimposed sets of 2D landmarks

Description

visualise differences between two superimposed sets of 2D landmarks by deforming a square grid based on a thin-plate spline interpolation

Usage

deformGrid2d(
  matrix,
  tarmatrix,
  ngrid = 0,
  lwd = 1,
  show = c(1:2),
  lines = TRUE,
  lcol = 1,
  lty = 2,
  col1 = 2,
  col2 = 3,
  pcaxis = FALSE,
  add = FALSE,
  wireframe = NULL,
  margin = 0.2,
  gridcol = "grey",
  gridlty = 1,
  cex1 = 1,
  cex2 = 1,
  ...
)

Arguments

matrix	reference matrix containing 2D landmark coordinates or mesh of class "mesh3d"
tarmatrix	target matrix containing 2D landmark coordinates or mesh of class "mesh3d"
ngrid	number of grid lines to be plotted; ngrid=0 suppresses grid creation.
lwd	width of lines connecting landmarks.
show	integer (vector): if c(1:2) both configs will be plotted, show = 1 only plots the reference and show = 2 the target. plotted. Options are combinations of 1,2 and 3.
lines	logical: if TRUE, lines between landmarks will be plotted.
lcol	color of lines
lty	line type
col1	color of "matrix"
col2	color of "tarmat"
pcaxis	logical: align grid by shape's principal axes.
add	logical: if TRUE, output will be drawn on existing plot.
wireframe	list/vector containing row indices to be plotted as wireframe (see lineplot.)
margin	margin around the bounding box to draw the grid
gridcol	color of the grid
gridlty	linetype for grid
cex1	control size of points belonging to matrix
cex2	control size of points belonging to tarmatrix
...	additional parameters passed to plot

Value

if ngrid > 1 the coordinates of the displaced grid knots are returned.

Author(s)

Stefan Schlager

See Also

tps3d

Examples

if (require(shapes)) {
proc <- procSym(gorf.dat)
deformGrid2d(proc$mshape,proc$rotated[,,1],ngrid=5,pch=19)
}

Morpho documentation built on Feb. 16, 2023, 10:51 p.m.