fossilbrush (version 1.0.6)

plot_taxa: plot_taxa

Description

Function to plot the parent or child relationships of an element in a hierarchically organised dataframe. Multiple taxa can be plotted simultaneously

Usage

plot_taxa(
  x,
  taxon,
  trank,
  ranks,
  mode = c("parent", "child", "all"),
  step = NULL
)

Value

A plot of the relationships of the specified elements

Arguments

x

a dataframe containing hierarchically organised data in columns

taxon

A character vector of element names whose relationships will be plotted (these must be of the same rank)

trank

A character vector of length one corresponding to the column name in x in which taxa is located

ranks

A character vector corresponding to the column names in x, given in hierarchical order

mode

The direction of the relationships to be plotted

step

A positive integer specifinyg the neighbourhood of the relationships to plot. Specifying a number greater than the number of ranks will not cause a failure, and will instead plot all relationships in the direction specified in mode

Examples

# load dataset
data("brachios")
# define ranks in dataset
b_ranks <- c("phylum", "class", "order", "family", "genus")
# plot taxon
plot_taxa(brachios, "Atrypa", trank = "genus", ranks = b_ranks, mode = "parent")