plot_topology: Plot the topology of a trajectory

In dynverse/dynplot: Visualising Single-Cell Trajectories

Description

Plot the topology of a trajectory

Usage

plot_topology(
  trajectory,
  color_milestones = c("auto", "given", "cubeHelix", "Set3", "rainbow"),
  milestones = NULL,
  layout = NULL,
  arrow = grid::arrow(type = "closed", length = unit(0.4, "cm"))
)

Arguments

trajectory	A dynwrap trajectory.
color_milestones	Which palette to use for colouring the milestones auto: Determine colours automatically. If color is already specified in milestones tibble, this will be used. Otherwise, the colour scheme is determined by milestone_palette_list$auto. given: The milestones object already contains a column color. cubeHelix: Use the rje::cubeHelix() palette. Set3: Use the RColorBrewer::brewer.pal(name = "Set3") palette. rainbow: Use the grDevices::rainbow() palette.
milestones	Tibble containing the column milestone_id (character). If color_milestones is set to "given", this tibble should also contain a column color (character), containing colour hex codes (e.g. "#123456").
layout	The type of layout to create. See ggraph::ggraph() for more info.
arrow	The type and size of arrow in case of directed trajectories. Set to NULL to remove arrow altogether.

Value

A topology ggplot of a trajectory.

Examples

data(example_disconnected)
plot_topology(example_disconnected)

data(example_tree)
plot_topology(example_tree)

dynverse/dynplot documentation built on Dec. 12, 2021, 9:39 p.m.