This function generates line plots for abundance data.
abundance.lineplot(
data.summary,
by = data.frame(group = c(), variable.1 = c(), variable.2 = c()),
.width = 0.5,
.position_dodge = 0,
errorbar.width = 0.5,
.xlab = "group",
.ylab = "abundance",
axis.title.size = 10,
axis.title.x.vjust = 0,
axis.title.y.vjust = 0,
axis.text.size = 10,
axis.line.size = 0.5,
axis.tick.length = 0.2,
legend.title = "",
legend.color = "Set2",
color.style = "Nature",
.legend.direction = "vertical",
.legend.position = "right",
main.size = 10
)A list of ggplot objects, each representing a line plot for abundance data of a species. In addition, the list includes a line plot for the sum of abundance of each class of lipid type, unsaturation, and carbon number.
A data frame containing summarized abundance data.
A data frame specifying additional variables for grouping and plotting (default is an empty data frame).
The width of lines in the plot (default is 0.5).
The position adjustment parameter for dodging lines (default is 0.5).
The width of error bars (default is 0.5).
The label for the x-axis (default is 'group').
The label for the y-axis (default is 'abundance').
The size of axis title text (default is 10).
The vertical adjustment parameter for x-axis title (default is 0).
The vertical adjustment parameter for y-axis title (default is 0).
The size of axis text (default is 10).
The size of axis lines (default is 0.5).
The length of axis ticks (default is 0.2).
The title for the legend (default is an empty string).
The color palette for the legend (default is a set of predefined colors).
The style of colors, which can be "Nature", "Science", "Lancet", "JCO", "D3", "IGV", "Star Trek", "Tron Legacy", "Rick and Morty", and "The Simpsons". Default value is "Nature".
The direction of the legend ('horizontal' or 'vertical', default is 'vertical').
The position of the legend ('top', 'bottom', 'left', 'right', or NULL, default is 'right').
The size of plot titles (default is 10).