KYCG_plotDot: Dot plot to show most enriched CG groups from testEnrichment

In zwdzwd/sesame: SEnsible Step-wise Analysis of DNA MEthylation BeadChips

Dot plot to show most enriched CG groups from testEnrichment

Description

The input data frame should have an "estimate" and a "FDR" columns.

Usage

KYCG_plotDot(
  df,
  y = "-log10(FDR)",
  n = 20,
  order_by = "FDR",
  title = "Enriched Databases",
  label_by = "dbname",
  size_by = "overlap",
  color_by = "estimate",
  short_label = FALSE
)

Arguments

df	KYCG result data frame
y	the column to be plotted on y-axis
n	number of CG groups to plot
order_by	the column by which CG groups are ordered
title	plot title
label_by	the column for label
size_by	the column by which CG group size plot
color_by	the column by which CG groups are colored
short_label	omit group in label

Details

Top CG groups are determined by estimate (descending order).

Value

grid plot object (by ggplot)

Examples

KYCG_plotDot(data.frame(
  estimate=runif(10,0,10), FDR=runif(10,0,1), nD=runif(10,10,20),
  overlap=as.integer(runif(10,0,30)), group="g", dbname=seq_len(10)))

zwdzwd/sesame documentation built on April 28, 2024, 12:48 p.m.