Volcano: This is a volcano plot function

In yujijun/crisprverfied: This package is used for CRISPR SCREEN paper verification

Description

This is a volcano plot function

Usage

Volcano(
  data = data,
  x = "log2FoldChange",
  y = "Padj",
  fill,
  color = "Threshold",
  color_palette = c("#8DA0CB", "grey", "#FC8D62"),
  label = "gene",
  label_data = subset_data,
  alpha = 0.5,
  plotLab = T,
  xlab = "log2 Fold Change",
  ylab = "log10 Padj",
  title = "Volcano Plot of genes",
  xline = c(-1, 1)
)

Arguments

data	the dataframe you would like to display
x	the colname of data which you would like to use as x value.
y	the colname of data which you would lite to use as y value.
fill	the colname of data you would like to draw color(fill color)
color	the colname of data you would like to draw color(edge color)
color_palette	all colors your would like to use in your figure.
label	the lable name you would like to put
label_data	A dataframe which you would like to take label
alpha	the transparency of points
plotLab	the logical value, if you would like to display label text.
xlab	the name of x-asix, with the default string of "log2FoldChange".
ylab	the name of y-asix, with the default string of "-log10 Padj".
title	the name of this figure. default name is "Volcano Plot of genes"
xline	the xintercept, default is c(-1,1).

Value

a volcano plot of ggplot format

yujijun/crisprverfied documentation built on March 29, 2020, 6:29 a.m.