scGODotPlot: scGODotPlot visualization

Description Usage Arguments Author(s)

View source: R/scGODotPlot.R

Description

scGODotPlot visualization for all clusters

Usage

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scGODotPlot(
  object = NULL,
  key = NULL,
  clusters = NULL,
  direction = "up",
  ont = "BP",
  padj.cutoff = 0.01,
  order.genes = FALSE,
  colors = NULL,
  font.size = 8,
  top_n = 5,
  extra = NULL
)

Arguments

object

Seurat object

key

The keyword that is stored in object@misc$key

clusters

Vectors of clusters to display, default clusters=NULL means all clusters

direction

Regulation direction to use, only 'up' or 'down' is allowed

ont

Ontology to use, only 'BP', 'CC', or 'MF' is allowed

padj.cutoff

The cutoff of adjusted Pvalue, default padj.cutoff=0.01

order.genes

Order GO results by the number of significant genes, default is FALSE

colors

Colors to specify, default cols = c('white', 'red')

font.size

Font size of axis

top_n

Only top_n entries to plot

extra

Extra slot used to fetch GOs

Author(s)

Wei Zhang


rstatistics/SCKIT documentation built on Dec. 22, 2021, 7:18 p.m.