Plot Consensus Matrix Heatmap

Plot Consensus Matrix Heatmap

Usage

# S3 method for class 'consensus_nmf'
plot(
  x,
  cluster_rows = TRUE,
  cluster_cols = TRUE,
  show_clusters = TRUE,
  color_palette = c("white", "#fee5d9", "#fcae91", "#fb6a4a", "#de2d26", "#a50f15"),
  interactive = FALSE,
  ...
)

Arguments

x

consensus_nmf object

cluster_rows

whether to reorder rows by hierarchical clustering (default TRUE)

cluster_cols

whether to reorder columns (default TRUE, same as rows)

show_clusters

whether to show cluster assignments as sidebar (default TRUE)

color_palette

color palette name or vector of colors

interactive

whether to make interactive plotly heatmap (default FALSE)

...

additional arguments (unused)

Value

A ggplot2 object (or plotly object if interactive = TRUE) showing the consensus heatmap.

See also

consensus_nmf, summary.consensus_nmf

Examples

# \donttest{
library(Matrix)
A <- rsparsematrix(50, 30, 0.3)
cons <- consensus_nmf(A, k = 3, reps = 5, seed = 42)
if (requireNamespace("ggplot2", quietly = TRUE)) {
  plot(cons)
}

# }