Plot a graphical representation of a single treeSource:
This function first obtains an SVG representation of the tree by calling the
draw_svg method of tskit and renders it as a bitmap image in R. All of
the many optional keyword arguments of the
draw_svg method can be
provided and will be automatically passed to the method behind the scenes.
A single tree extracted by
- width, height
Pixel dimensions of the rendered bitmap
Label each node with the individual name?
Should only individuals explicitly sampled through simplification be labeled? This is relevant in situations in which sampled individuals can themselves be among the ancestral nodes.
Keyword arguments to the tskit
check_dependencies(python = TRUE) # make sure dependencies are present init_env() #> The interface to all required Python modules has been activated. # load an example model with an already simulated tree sequence slendr_ts <- system.file("extdata/models/introgression.trees", package = "slendr") model <- read_model(path = system.file("extdata/models/introgression", package = "slendr")) # load the tree-sequence object from disk ts <- ts_load(slendr_ts, model, simplify = TRUE) # extract the first tree in the tree sequence and draw it tree <- ts_tree(ts, i = 1) # ts_draw accepts various optional arguments of tskit.Tree.draw_svg ts_draw(tree, time_scale = "rank") #> Error in ts_draw(tree, time_scale = "rank"): For plotting trees using the native SVG tskit capabilities, please #> install the R package rsvg by calling `install.packages("rsvg")