plot_gsva_pca-ReactomeAnalysisResult-method: plot_gsva_pca - ReactomeAnalysisResult

In ReactomeGSA: Client for the Reactome Analysis Service for comparative multi-omics gene set analysis

Description

Runs a Principal Component analysis (using prcomp) on the samples based on the pathway analysis results.

Usage

## S4 method for signature 'ReactomeAnalysisResult'
plot_gsva_pca(object, pathway_ids = NULL, ...)

Arguments

object	A ReactomeAnalysisResult object containing a ssGSEA result
pathway_ids	A character vector of pathway ids. If set, only these pathways will be used for the PCA analysis.
...	Additional parameters are passed to prcomp

Value

A ggplot2 object representing the plot.

Examples

# load the scRNA-seq example data
library(ReactomeGSA.data)
data(jerby_b_cells)

# perform the GSVA analysis
gsva_result <- analyse_sc_clusters(jerby_b_cells, verbose = FALSE)

ReactomeGSA documentation built on April 17, 2021, 6:01 p.m.