Momocs (version 1.4.1)

layers: grindr layers for multivariate plots

Description

Useful layers for building custom mutivariate plots using the cheapbabi approach. See examples.

Usage

layer_frame(x, center_origin = TRUE, zoom = 0.9)
layer_axes(x, col = "#999999", lwd = 1/2, ...)
layer_ticks(x, col = "#333333", cex = 3/4, lwd = 3/4, ...)
layer_grid(x, col = "#999999", lty = 3, grid = 3, ...)
layer_box(x, border = "#e5e5e5", ...)
layer_fullframe(x, ...)
layer_points(x, pch = 20, cex = 4/log1p(nrow(x$xy)), transp = 0, ...)
layer_ellipses(x, conf = 0.5, lwd = 1, alpha = 0, ...)
layer_ellipsesfilled(x, conf = 0.5, lwd = 1, alpha = 0, ...)
layer_ellipsesaxes(x, conf = 0.5, lwd = 1, alpha = 0, ...)
layer_chull(x, ...)
layer_chullfilled(x, alpha = 0.8, ...)
layer_stars(x, alpha = 0.5, ...)
layer_delaunay(x, ...)
layer_density(
  x,
  levels_density = 20,
  levels_contour = 4,
  alpha = 1/3,
  n = 200,
  density = TRUE,
  contour = TRUE
)
layer_labelpoints(
  x,
  col = par("fg"),
  cex = 2/3,
  font = 1,
  abbreviate = FALSE,
  ...
)
layer_labelgroups(
  x,
  col = par("fg"),
  cex = 3/4,
  font = 2,
  rect = TRUE,
  alpha = 1/4,
  abbreviate = FALSE,
  ...
)
layer_rug(x, size = 1/200, ...)
layer_histogram_2(x, freq = FALSE, breaks, split = FALSE, transp = 0)
layer_density_2(x, bw, split = FALSE, rug = TRUE, transp = 0)
layer_title(x, title = "", cex = 3/4, ...)
layer_axesnames(x, cex = 3/4, name = "Axis", ...)
layer_eigen(x, nb_max = 5, cex = 1/2, ...)
layer_axesvar(x, cex = 3/4, ...)
layer_legend(x, probs = seq(0, 1, 0.25), cex = 3/4, ...)

Value

a drawing layer

Arguments

x

a list, typically returned by plot_PCA

center_origin

logical whether to center the origin (default TRUE)

zoom

numeric to change the zoom (default 0.9)

col

color (hexadecimal) to use for drawing components

lwd

linewidth for drawing components

...

additional options to feed core functions for each layer

cex

to use for drawing components

lty

linetype for drawing components

grid

numeric number of grid to draw

border

color (hexadecimal) to use to draw border

pch

to use for drawing components

transp

transparency to use (min: 0 defaut:0 max:1)

conf

numeric between 0 and 1 for confidence ellipses

alpha

numeric between 0 and 1 for the transparency of components

levels_density

numeric number of levels to use to feed MASS::kde2d

levels_contour

numeric number of levels to use to feed graphics::contour

n

numeric number of grid points to feed MASS::kde2d

density

logical whether to draw density estimate

contour

logical whether to draw contour lines

font

to feed text

abbreviate

logical whether to abbreviate names

rect

logical whether to draw a rectangle below names

size

numeric as a fraction of graphical window (default: 1/200)

freq

logicalto feed[hist] (default:FALSE`)

breaks

to feed hist (default: calculated on the pooled values)

split

logical whether to split the two distributions into two plots

bw

to feed density (default: stats::bw.nrd0)

rug

logical whether to add rug (default: TRUE)

title

to add to the plot (default "")

name

to use on axes (default "Axis")

nb_max

numeric number of eigen values to display (default 5)

probs

numeric sequence to feed stats::quantile and to indicate where to draw ticks and legend labels

See Also

grindr_drawers

Other grindr: drawers, layers_morphospace, mosaic_engine(), papers, pile(), plot_LDA(), plot_NMDS(), plot_PCA()