xQTLvisual_anno: Visualize enrichment of variants derived from...

In dingruofan/xQTLbiolinks: An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

Visualize enrichment of variants derived from xQTLanno_genomic

Description

Visualize enrichment of variants derived from xQTLanno_genomic

Usage

xQTLvisual_anno(
  snpHits,
  axis_text_size = 1.3,
  axis_title_size = 1.3,
  legend_text_size = 1.1,
  title_size = 1.4,
  xlab_text = "",
  ylab_text = "",
  title_text = "",
  point_color = NULL
)

Arguments

snpHits	A data.table object from result of xQTLanno_genomic
axis_text_size	(numberic) text size of the axis labels
axis_title_size	(numberic) text size of the axis title
legend_text_size	(numberic) text size of the legend text
title_size	(numberic) text size of the title of the plot
xlab_text	(character) Lable for x-axis
ylab_text	(character) Lable for x-axis
title_text	(character) Title of the plot
pValueBy	Cut step of pvlaue. Defaults: 5
annoType	"enrichment" or "overlapping"

Value

A ggplot object

Examples

url1 <- "http://bioinfo.szbl.ac.cn/xQTL_biolinks/xqtl_data/gwas/gwasSub.txt.gz"
snpInfo <- fread(url1, sep="\t")
snpHits <- xQTLanno_genomic(snpInfo)
p <- xQTLvisual_anno(snpHits)

dingruofan/xQTLbiolinks documentation built on Feb. 12, 2025, 4:57 a.m.