plotClusBox: Make a boxplot grouped by gene sets or clusters

In kevincjnixon/BinfTools: Useful functions for standard analyses

Make a boxplot grouped by gene sets or clusters

Description

Make a boxplot grouped by gene sets or clusters

Usage

plotClusBox(
  x,
  yax = "Log2FoldChange",
  col = "Dark2",
  title = "",
  style = "box",
  showStat = TRUE
)

Arguments

x	Data frame or named list of data frames of average gene expression or log2FoldChanges of a subset of genes, where each column is a condition or contrast (in the order you want displayed), and rows are genes.
yax	Character indicating the y-axis label of the boxplot. Default="Log2FoldChange".
col	Character indicating the RColorBrewer palette name or list of colours (hex, name, rgb()) to be used for the bar plot. Default is "Dark2"
title	Character indicating the title of the plot
style	Character of either 'box' or 'violin' to change the style of the figure generated.
showStat	Boolean indicating if significance of pairwise contrasts within each group should be shown. Default=TRUE

Value

Boxplot or grouped boxplot and tibble containing statistics from pairwise t-tests.

Examples

groups<-gmtHeat(counts, cond, gmt, retGroups=T)
plotClusBox(x=groups, yax="Log2FoldChange", col="Dark2", title="", showStat=TRUE)

kevincjnixon/BinfTools documentation built on July 10, 2024, 11:46 a.m.