plot.mtmps: Plot the multi-trait stability index

Description

Makes a radar plot showing the multitrait stability index proposed by Olivoto et al. (2019)

Usage

# S3 method for mtmps
plot(
  x,
  SI = 15,
  type = "index",
  position = "fill",
  genotypes = "selected",
  title = TRUE,
  radar = TRUE,
  arrange.label = FALSE,
  x.lab = NULL,
  y.lab = NULL,
  size.point = 2.5,
  size.line = 0.7,
  size.text = 10,
  width.bar = 0.75,
  n.dodge = 1,
  check.overlap = FALSE,
  invert = FALSE,
  col.sel = "red",
  col.nonsel = "black",
  legend.position = "bottom",
  ...
)

Value

An object of class gg, ggplot.

Arguments

x: An object computed with mps().
SI: An integer (0-100). The selection intensity in percentage of the total number of genotypes.
type: The type of the plot. Defaults to "index". Use type = "contribution" to show the contribution of each factor to the MTMPS index of the selected genotypes.
position: The position adjustment when type = "contribution". Defaults to "fill", which shows relative proportions at each trait by stacking the bars and then standardizing each bar to have the same height. Use position = "stack" to plot the MGIDI index for each genotype.
genotypes: When type = "contribution" defines the genotypes to be shown in the plot. By default (genotypes = "selected" only selected genotypes are shown. Use genotypes = "all" to plot the contribution for all genotypes.)
title: Logical values (Defaults to TRUE) to include automatically generated titles.
radar: Logical argument. If true (default) a radar plot is generated after using coord_polar().
arrange.label: Logical argument. If TRUE, the labels are arranged to avoid text overlapping. This becomes useful when the number of genotypes is large, say, more than 30.
x.lab, y.lab: The labels for the axes x and y, respectively. x label is set to null when a radar plot is produced.
size.point: The size of the point in graphic. Defaults to 2.5.
size.line: The size of the line in graphic. Defaults to 0.7.
size.text: The size for the text in the plot. Defaults to 10.
width.bar: The width of the bars if type = "contribution". Defaults to 0.75.
n.dodge: The number of rows that should be used to render the x labels. This is useful for displaying labels that would otherwise overlap.
check.overlap: Silently remove overlapping labels, (recursively) prioritizing the first, last, and middle labels.
invert: Logical argument. If TRUE, rotate the plot.
col.sel: The colour for selected genotypes. Defaults to "red".
col.nonsel: The colour for nonselected genotypes. Defaults to "black".
legend.position: The position of the legend.
...: Other arguments to be passed from ggplot2::theme().

Author

Tiago Olivoto tiagoolivoto@gmail.com

References

Olivoto, T., A.D.C. Lúcio, J.A.G. da silva, B.G. Sari, and M.I. Diel. 2019. Mean performance and stability in multi-environment trials II: Selection based on multiple traits. Agron. J. (in press).

Examples

Run this code

# \donttest{
library(metan)
model <-
mps(data_ge,
    env = ENV,
    gen = GEN,
    rep = REP,
    resp = everything())
selection <- mtmps(model)
plot(selection)
# }

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