plot.cograph_motifs: Plot Network Motifs

In cograph: Analysis and Visualization of Complex Networks

Plot Network Motifs

Description

Visualize motif frequencies and their statistical significance.

Usage

## S3 method for class 'cograph_motifs'
plot(
  x,
  type = c("bar", "heatmap", "network"),
  show_nonsig = FALSE,
  top_n = NULL,
  colors = c("#2166AC", "#F7F7F7", "#B2182B"),
  combined = TRUE,
  ...
)

Arguments

x	A cograph_motifs object from motif_census()
type	Plot type: "bar" (default) Bar chart of motif frequencies, colored by significance direction (over/under-represented). "heatmap" Heatmap of z-scores across motif types. "network" Network diagrams of the top motifs by |z-score|.
show_nonsig	Show non-significant motifs? Default FALSE.
top_n	Show only top N motifs by |z-score|. Default NULL (all).
colors	Three-element color vector for under-represented, neutral, and over-represented motifs. Default c("#2166AC", "#999999", "#B2182B") (blue/gray/red).
combined	Logical: when TRUE (default) and type = "network", arrange the per-motif panels in an internal grid via graphics::par(mfrow=...). Set to FALSE to draw into a layout the caller has already configured (e.g. via panel_layout()). Has no effect for type = "bar" or type = "heatmap".
...	Additional arguments passed to plotting functions

Value

A ggplot2 object (invisibly)

See Also

motif_census() for the analysis that produces this object

Other motifs: extract_motifs(), extract_triads(), get_edge_list(), motif_census(), motifs(), plot.cograph_motif_analysis(), subgraphs(), triad_census()

Examples

mat <- matrix(sample(0:1, 100, replace = TRUE, prob = c(0.7, 0.3)), 10, 10)
diag(mat) <- 0
m <- motif_census(mat, directed = TRUE, n_random = 50)
plot(m)
plot(m, type = "network")

cograph documentation built on May 31, 2026, 5:06 p.m.