barplot_pwys: Make barplots for the p-Values of Pathway Analysis

In jdreyf/ezlimmaplot: Bioinformatics plots using limma and ggplot2, some from output of ezlimma

Make barplots for the p-Values of Pathway Analysis

Description

Make barplots for the p-Values of pathway analysis using ggplot2.

Usage

barplot_pwys(
  tab,
  prefix.v = NULL,
  name = NA,
  width = 10,
  height = 4,
  ntop = 20,
  direction = c("Up", "Down"),
  pwys_nm_size = 100
)

Arguments

tab	Table of output from ezlimma.
prefix.v	A vector of prefixes that prefix .p, .FDR, or .logFC in colnames(tab). These will be the columns that are used in the Venn diagram. If NULL these are inferred from colnames(tab) that end with .p.
name	Name of file to create. Set to NA to plot to screen instead of to file.
width	Manual option for determining the output file width in inches.
height	Manual option for determining the output file height in inches.
ntop	Number of top pathways.
direction	Direction of change.
pwys_nm_size	The maximum number of characters for pathway names. Longer names will be truncated.

Value

Invisibly, the last ggplot object.

jdreyf/ezlimmaplot documentation built on Feb. 8, 2025, 2:25 a.m.