> Reference > > dynplot :: Plot a trajectory > Plot a trajectory as a dendrogram

Plot a trajectory as a dendrogram

plot_dendro(trajectory, color_cells = c("auto", "none", "grouping",
  "feature", "milestone", "pseudotime"), grouping = NULL,
  groups = NULL, feature_oi = NULL, expression_source = "expression",
  pseudotime = NULL, color_milestones = c("auto", "given", "cubeHelix",
  "Set3", "rainbow"), milestones = NULL, milestone_percentages = NULL,
  diag_offset = 0.05, y_offset = 0.2)

Arguments

trajectory	The trajectory
color_cells	How to color the cells
grouping	The grouping of the cells
groups	Tibble containing information of the cell groups
feature_oi	feature to plot expression
expression_source	Source of the feature expression, defaults to `expression`
pseudotime	The pseudotime
color_milestones	How to color the cells
milestones	Tibble containing the `milestone_id` and a `color` for each milestone
milestone_percentages	The milestone percentages
diag_offset	The x-offset (percentage of the edge lenghts) between milestones
y_offset	The size of the quasirandom cell spreading in the y-axis

Examples

data(example_tree)
plot_dendro(example_tree)
#> root cell or milestone not provided, trying first outgoing milestone_id
#> Using 'M1' as root
#> Coloring by milestone
#> Using milestone_percentages from trajectory
plot_dendro(example_tree, color_cells = "pseudotime")
#> root cell or milestone not provided, trying first outgoing milestone_id
#> Using 'M1' as root
#> Pseudotime not provided, will calculate pseudotime from root milestone
plot_dendro(
  example_tree,
  color_cells = "grouping",
  grouping = dynwrap::group_onto_nearest_milestones(example_tree)
)
#> root cell or milestone not provided, trying first outgoing milestone_id
#> Using 'M1' as root