- x
An object fitted with the functions performs_ammi()
,
waas()
, waas_means()
, or waasb()
.
- var
The variable to plot. Defaults to var = 1
the first
variable of x
.
- type
type of biplot to produce
type = 1
The default. Produces an AMMI1 biplot (Y x PC1) to make
inferences related to stability and productivity.
type = 2
Produces an AMMI2 biplot (PC1 x PC2) to make inferences
related to the interaction effects. Use the arguments first
or
second
to change the default IPCA shown in the plot.
type = 3
Valid for objects of class waas
or waasb
,
produces a biplot showing the GY x WAASB.
type = 4
Produces a plot with the Nominal yield x Environment PC.
- first, second
The IPCA to be shown in the first (x) and second (y)
axis. By default, IPCA1 is shown in the x
axis and IPCA2 in the
y
axis. For example, use second = "PC3"
to shown the IPCA3 in
the y
axis.
- repel
If TRUE
(default), the text labels repel away from each
other and away from the data points.
- repulsion
Force of repulsion between overlapping text labels. Defaults
to 1
.
- max_overlaps
Exclude text labels that overlap too many things. Defaults to 20.
- polygon
Logical argument. If TRUE
, a polygon is drawn when
type = 2
.
- title
Logical values (Defaults to TRUE
) to include
automatically generated titles
- plot_theme
The graphical theme of the plot. Default is
plot_theme = theme_metan()
. For more details, see
ggplot2::theme()
.
- axis.expand
Multiplication factor to expand the axis limits by to
enable fitting of labels. Default is 1.1
.
- x.lim, y.lim
The range of x and y axes, respectively. Default is
NULL
(maximum and minimum values of the data set). New values can be
inserted as x.lim = c(x.min, x.max)
or y.lim = c(y.min, y.max)
.
- x.breaks, y.breaks
The breaks to be plotted in the x and y axes,
respectively. Defaults to waiver()
(automatic breaks). New values
can be inserted, for example, as x.breaks = c(0.1, 0.2, 0.3)
or
x.breaks = seq(0, 1, by = 0.2)
- x.lab, y.lab
The label of x and y axes, respectively. Defaults to
NULL
, i.e., each plot has a default axis label. New values can be
inserted as x.lab = 'my label'
.
- shape.gen, shape.env
The shape for genotypes and environments
indication in the biplot. Default is 21
(circle) for genotypes and
23
(diamond) for environments. Values must be between 21-25
:
21
(circle), 22
(square), 23
(diamond), 24
(up
triangle), and 25
(low triangle).
- size.shape.gen, size.shape.env
The size of the shapes for genotypes and
environments respectively. Defaults to 2.2
.
- size.bor.tick
The size of tick of shape. Default is 0.1
. The
size of the shape will be max(size.shape.gen, size.shape.env) + size.bor.tick
- size.tex.lab, size.tex.gen, size.tex.env
The size of the text for axis
labels (Defaults to 12), genotypes labels, and environments labels
(Defaults to 3.5).
- size.line
The size of the line that indicate the means in the biplot.
Default is 0.5
.
- size.segm.line
The size of the segment that start in the origin of the
biplot and end in the scores values. Default is 0.5
.
- col.bor.gen, col.bor.env
The color of the shape's border for genotypes
and environments, respectively.
- col.line
The color of the line that indicate the means in the biplot.
Default is 'gray'
- col.gen, col.env
The shape color for genotypes (Defaults to
'blue'
) and environments ('forestgreen'
). Must be length
one or a vector of colors with the same length of the number of
genotypes/environments.
- col.alpha.gen, col.alpha.env
The alpha value for the color for
genotypes and environments, respectively. Defaults to NA
. Values must be
between 0
(full transparency) to 1
(full color).
- col.segm.gen, col.segm.env
The color of segment for genotypes (Defaults
to transparent_color()
) and environments (Defaults to 'forestgreen'),
respectively. Valid arguments for plots with type = 1
or type = 2
graphics.
- highlight
Genotypes/environments to be highlight in the plot. Defaults
to NULL
.
- col.highlight
The color for shape/labels when a value is provided in
highlight.
Defaults to "red"
.
- col.alpha.highlight
The alpha value for the color of the highlighted
genotypes. Defaults to 1
.
- size.tex.highlight
The size of the text for the highlighted genotypes.
Defaults to 5.5
.
- size.shape.highlight
The size of the shape for the highlighted
genotypes. Defaults to 3.2
.
- leg.lab
The labs of legend. Default is Gen
and Env
.
- line.type
The type of the line that indicate the means in the biplot.
Default is 'solid'
. Other values that can be attributed are:
'blank'
, no lines in the biplot, 'dashed', 'dotted', 'dotdash', 'longdash', and 'twodash'
.
- line.alpha
The alpha value that combine the line with the background
to create the appearance of partial or full transparency. Default is
0.4
. Values must be between '0' (full transparency) to '1' (full
color).
- resolution
deprecated
- file.type
The type of file to be exported. Currently recognises the extensions
eps/ps, tex, pdf, jpeg, tiff, png (default), bmp, svg and wmf (windows only).
- export
Export (or not) the plot. Default is FALSE
. If TRUE
, calls the
ggplot2::ggsave()
function.
- file.name
The name of the file for exportation, default is
NULL
, i.e. the files are automatically named.
- width
The width 'inch' of the plot. Default is 8
.
- height
The height 'inch' of the plot. Default is 7
.
- color
Should type 4 plot have colors? Default to TRUE
.
- ...
Currently not used.