pcaEnrichment {escape}

R Documentation

Density plot of the principal components

Description

Density plot of the principal components

Usage

pcaEnrichment(
  PCAout,
  PCx,
  PCy,
  colors = c("#0348A6", "#7AC5FF", "#C6FDEC", "#FFB433", "#FF4B20"),
  contours = TRUE,
  facet = NULL
)

Arguments

PCAout	The output of performPCA
PCx	The principal component graphed on the x-axis
PCy	The principal component graphed on the y-axis
colors	The color palette for the density plot
contours	Binary classifier to add contours to the density plot
facet	A parameter to separate the graph

Value

ggplot2 object of the results of PCA for the enrichment scores

See Also

performPCA for generating PCA results.

Examples

ES2 <- readRDS(url(
"https://ncborcherding.github.io/vignettes/escape_enrichment_results.rds"))
PCA <- performPCA(enriched = ES2, groups = c("Type", "Cluster"))
pcaEnrichment(PCA, PCx = "PC1", PCy = "PC2", contours = TRUE)

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