plot_simData: Visualizing the simulated data using heatmap or 3D surface...

In SUMO: Generating Multi-Omics Datasets for Testing and Benchmarking

Visualizing the simulated data using heatmap or 3D surface plot

Description

Generates a visual representation of the simulated omics data either as a heatmap or a 3D surface plot. You can select which dataset to visualize: the merged/concatenated matrix, or any individual omic (e.g., "omic1", "omic2", etc.).

Usage

plot_simData(sim_object, data = "merged", type = "heatmap")

Arguments

sim_object	R object containing simulated data as returned by simulate_twoOmicsData and simulateMultiOmics.
data	Character. Specifies which data matrix to visualize. Options are "merged" (or "concatenated"), "omic.one", or "omic.two".
type	Character. Type of plot: either "heatmap" for a 2D image plot or "3D" for a 3D perspective surface plot.

Examples

output_obj <- simulateMultiOmics(
  vector_features = c(3000, 2500, 2000),
  n_samples = 100,
  n_factors = 3,
  snr = 3,
  signal.samples = c(5, 1),
  signal.features = list(
    c(3, 0.3),
    c(2.5, 0.25),
    c(2, 0.2)
  ),
  factor_structure = "mixed",
  num.factor = "multiple",
  seed = 123
)

# Visualize merged heatmap
plot_simData(sim_object = output_obj, data = "merged", type = "heatmap")

# Visualize omic2 in 3D
plot_simData(sim_object = output_obj, data = "omic2", type = "heatmap")

SUMO documentation built on June 8, 2025, 12:45 p.m.