stack.Coo: Family picture of shapes

In Momocs: Morphometrics using R

Family picture of shapes

Description

Plots all the outlines, on the same graph, from a Coo (Out, Opn or Ldk) object.

Usage

## S3 method for class 'Coo'
stack(
  x,
  cols,
  borders,
  fac,
  palette = col_summer,
  coo_sample = 120,
  points = FALSE,
  first.point = TRUE,
  centroid = TRUE,
  ldk = TRUE,
  ldk_pch = 3,
  ldk_col = "#FF000055",
  ldk_cex = 0.5,
  ldk_links = FALSE,
  ldk_confell = FALSE,
  ldk_contour = FALSE,
  ldk_chull = FALSE,
  ldk_labels = FALSE,
  xy.axis = TRUE,
  title = substitute(x),
  ...
)

## S3 method for class 'Ldk'
stack(
  x,
  cols,
  borders,
  first.point = TRUE,
  centroid = TRUE,
  ldk = TRUE,
  ldk_pch = 20,
  ldk_col = col_alpha("#000000", 0.5),
  ldk_cex = 0.3,
  meanshape = FALSE,
  meanshape_col = "#FF0000",
  ldk_links = FALSE,
  ldk_confell = FALSE,
  ldk_contour = FALSE,
  ldk_chull = FALSE,
  ldk_labels = FALSE,
  slidings = TRUE,
  slidings_pch = "",
  xy.axis = TRUE,
  title = substitute(x),
  ...
)

Arguments

x	The Coo object to plot.
cols	A vector of colors for drawing the outlines. Either a single value or of length exactly equals to the number of coordinates.
borders	A vector of colors for drawing the borders. Either a single value or of length exactly equals to the number of coordinates.
fac	a factor within the $fac slot for colors
palette	a color palette to use when fac is provided
coo_sample	if not NULL the number of point per shape to display (to plot quickly)
points	logical whether to draw or not points
first.point	logical whether to draw or not the first point
centroid	logical whether to draw or not the centroid
ldk	logical. Whether to display landmarks (if any).
ldk_pch	pch for these landmarks
ldk_col	color for these landmarks
ldk_cex	cex for these landmarks
ldk_links	logical whether to draw links (of the mean shape)
ldk_confell	logical whether to draw conf ellipses
ldk_contour	logical whether to draw contour lines
ldk_chull	logical whether to draw convex hull
ldk_labels	logical whether to draw landmark labels
xy.axis	whether to draw or not the x and y axes
title	a title for the plot. The name of the Coo by default
...	further arguments to be passed to coo_plot
meanshape	logical whether to add meanshape related stuff (below)
meanshape_col	a color for everything meanshape
slidings	logical whether to draw slidings semi landmarks
slidings_pch	pch for semi landmarks

Value

a plot

See Also

Other Coo_graphics: inspect(), panel()

Examples

stack(bot)
bot.f <- efourier(bot, 12)
stack(bot.f)
stack(mosquito, borders='#1A1A1A22', first.point=FALSE)
stack(hearts)
stack(hearts, ldk=FALSE)
stack(hearts, borders='#1A1A1A22', ldk=TRUE, ldk_col=col_summer(4), ldk_pch=20)
stack(hearts, fac="aut", palette=col_sari)

chaffal <- fgProcrustes(chaff)
stack(chaffal, slidings=FALSE)
stack(chaffal, meanshape=TRUE, meanshape_col="blue")

Momocs documentation built on Nov. 13, 2023, 5:07 p.m.