> Reference > > dynplot :: Plot a trajectory > Plot onedim

Plot onedim

plot_onedim(trajectory, color_cells = c("auto", "none", "grouping",
  "feature", "milestone", "pseudotime"), grouping = NULL,
  groups = NULL, feature_oi = NULL, pseudotime = NULL,
  expression_source = "expression", color_milestones = c("auto",
  "given", "cubeHelix", "Set3", "rainbow"), milestones = NULL,
  milestone_percentages = NULL, orientation = 1, margin = 0.05,
  linearised = linearise_cells(trajectory, margin, one_edge = TRUE),
  quasirandom_width = 0.2, plot_cells = TRUE,
  label_milestones = dynwrap::is_wrapper_with_milestone_labelling(trajectory))

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
pseudotime	The pseudotime
expression_source	Source of the feature expression, defaults to `expression`
color_milestones	How to color the cells
milestones	Tibble containing the `milestone_id` and a `color` for each milestone
milestone_percentages	The milestone percentages
orientation	Whether to plot the connections in the top (1) or bottom (-1)
margin	The margin to add
linearised	The linearised milestone network and progressions
quasirandom_width	The width of the quasirandom cell spreading
plot_cells	Whether to plot the cells
label_milestones	How to label the milestones. Can be TRUE (in which case the labels within the trajectory will be used), "all" (in which case both given labels and milestone_ids will be used), a named character vector, or FALSE

Examples

data(example_linear)
plot_onedim(example_linear)
#> root cell or milestone not provided, trying first outgoing milestone_id
#> Using 'M1' as root
#> Coloring by milestone
#> Using milestone_percentages from trajectory
plot_onedim(example_linear, label_milestones = TRUE)
#> root cell or milestone not provided, trying first outgoing milestone_id
#> Using 'M1' as root
#> Coloring by milestone
#> Using milestone_percentages from trajectory
data(example_tree)
plot_onedim(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