Plot VaSSTra State Sequences with Nestimate

Delegates sequence index, distribution, and heatmap rendering to Nestimate::sequence_plot().

Usage

# S3 method for class 'vasstra_sequences'
plot(
  x,
  type = c("heatmap", "distribution", "index"),
  colors = NULL,
  main = NULL,
  sort = "lcs",
  na = x$diagnostics$n_missing > 0L,
  ...
)

Arguments

x

A vasstra_sequences object.

type

One of "heatmap" (default), "distribution", or "index". The heatmap shows every aligned sequence at full resolution and is the most informative single view of the complete cohort.

colors

Optional colors, one per state, passed to Nestimate as state_colors.

main

Plot title. A type-specific title is used by default.

sort

Sequence ordering passed to Nestimate::sequence_plot().

na

Show missing cells as a separate distribution band. By default, this is TRUE only when the sequence data contain NA.

...

Additional arguments passed to Nestimate::sequence_plot().

Value

The value returned by Nestimate::sequence_plot().

See also

flow_plot() for alluvial and individual flow views.

Examples

data("engagement", package = "VaSSTra")
fit <- vasstra(engagement, n_states = 3, n_trajectories = 3)
plot(fit$sequences)

plot(fit$sequences, type = "distribution")