To be able to fine tune plotting, several additional plotting arguments are available. These are described on this page.
line.alpha: Numeric scalar in [0, 1],
Specifies the transparency of the tree edges. (Default: 1)
line.width: Numeric scalar. Specifies the default
width of an edge. (Default: NULL) to use default of the
ggtree package.
line.width.range: Numeric vector. The range for
plotting dynamic edge widths in. (Default: c(0.5,3))
point.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the tips. (Defaults: 1)
point.size: Numeric scalar. Specifies the
default size of tips. (Defaults: 2)
point.size.range: Numeric vector. Specifies the range
for plotting dynamic tip sizes in. (Defaults: c(1,4))
label.font.size: Numeric scalar. Font size for the
tip and node labels. (Default: 3)
highlight.font.size: Numeric scalar. Font size for
the highlight labels. (Default: 3)
line.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the tree edges. (Default: 1)
line.width: Numeric scalar. Specifies the default
width of an edge. (Default: NULL) to use default of the
ggtree package.
line.width.range: Numeric vector. The range for
plotting dynamic edge widths in. (Default: c(0.5,3))
point.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the tips. (Default: 1)
point.size: Numeric scalar. Specifies the
default size of tips. (Default: 2.)
point.size.range: Numeric vector. The range for
plotting dynamic tip sizes in. (Default: c(1,4))
flipped: Logical scalar. Should the plot be flipped?
(Default: FALSE)
add.legend: Logical scalar. Should legends be
plotted? (Default: TRUE)
add.x.text: Logical scalar. Should x tick labels be
plotted? (Default: FALSE)
add.border: Logical scalar. Should border of bars be
plotted? (Default: FALSE)
bar.alpha: Numeric scalar in [0, 1]. Specifies
the transparency of the bars. (Default: 1)
point.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the points. (Default: 1)
point.size: Numeric scalar. Specifies the
default size of points. (Default: 2)
add.legend: Logical scalar. Should legends be
plotted? (Default: TRUE)
point.shape: Numeric scalar. Sets the shape of
points. (Default: 21)
point.colour: Character scalar. Specifies the
default colour of points. (Default: 2)
point.size: Numeric scalar. Specifies the
default size of points. (Default: 2)
point.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the points. (Default: 1)
flipped: Logical scalar. Should the plot be flipped?
(Default: FALSE)
scales.free: Logical scalar. Should
scales = "free" be set for faceted plots? (Default: TRUE)
angle.x.text: Logical scalar. Should x tick labels be
plotted? (Default: FALSE)
flipped: Logical scalar. Specifies whether the plot
should be flipped. (Default: FALSE)
add.legend: Logical scalar. Should legends be
plotted? (Default: TRUE)
point.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the tips. (Default: 1)
point.size: Numeric scalar. Specifies the
default size of tips. (Default: 2.)
line.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the tree edges. (Default: 1)
line.type: Numeric scalar. Specifies the default line
type. (Default: NULL) to use default of the ggplot2 package.
line.size: Numeric scalar. Specifies the default
width of a line. (Default: NULL) to use default of the
ggplot2 package.
add.legend: Logical scalar. Should legends be
plotted? (Default: TRUE)
line.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the tree edges. (Default: 1)
line.type: Numeric scalar. Specifies the default line
type. (Default: NULL) to use default of the ggplot2 package.
line.width: Numeric scalar. Specifies the default
width of a line. (Default: NULL) to use default of the
ggplot2 package.
line.width.range: Numeric vector. The range for
plotting dynamic line widths in. (Default: c(0.5,3))
ribbon.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the ribbon. (Default: 0.3)
add.legend: Logical scalar. Should legends be
plotted? (Default: TRUE)
rect.alpha: Numeric scalar in [0, 1].
Specifies the transparency of the areas. (Default: 1)
rect.colour: Character scalar. Specifies the colour
to use for colouring the borders of the areas. (Default: "black")
na.value: Character scalar. Specifies the colour to
use for NA values. (Default: "grey80")