Skip to contents

Plot Summary of Factor Contributions from Multi-Omics Integration

Source: R/plot_factor_summary.R
plot_factor_summary.Rd

Generates a summary plot of factor contributions from multi-omics integration results stored in a MultiAssayExperiment object.

Usage

plot_factor_summary(
  expomicset,
  low = "#006666",
  mid = "white",
  high = "#8E0152",
  midpoint = 0.5
)

Arguments

expomicset

A MultiAssayExperiment object containing integration results in metadata(expomicset)$multiomics_integration$integration_results.

low

Color for low values in the fill gradient. Default is "#006666".

mid

Color for midpoint in the fill gradient. Default is "white".

high

Color for high values in the fill gradient. Default is "#8E0152".

midpoint

Midpoint value for the gradient color scale. Default is 0.5.

Value

A ggplot object showing factor contributions based on the integration method.

Details

This function visualizes factor contributions based on the integration method:

  • MOFA: Variance explained per factor and view.

  • MCIA: Block score weights per omic.

  • DIABLO: Mean absolute sample score per omic and factor (from block-specific variates).

  • RGCCA: Mean absolute sample score per omic and factor (from aligned block scores).

The color gradient can be customized using the low, mid, high, and midpoint parameters.

Examples

if (FALSE) { # \dontrun{
plot_factor_summary(expom)
plot_factor_summary(expom, low = "blue", mid = "white", high = "red")
} # }