Scatter plot showing pathway enrichment score

Source: R/Plots.R

Scatter plot showing pathway enrichment score

pathwayScatterplot(
  SeuratObj,
  by = "GO",
  pathwayID = NULL,
  reduction = "umap",
  colour = "OrRd",
  pointsize = 1,
  label = TRUE,
  label.size = 4
)

Arguments

SeuratObj

Object of class "Seurat"
by

which GSEA result to show
pathwayID

ID of pathway to show
reduction

"umap", "tsne", "pca"
colour

see RColorBrewer::brewer.pal.info
pointsize

size of point
label

label cluster or not
label.size

size of label

Examples

if (FALSE) {
pathwayScatterplot(SeuratObj, by = "GO", pathwayID = "GO:0002576")
}