xQTLvisual_sqtlExp: Boxplot of normalized PSI stratified by genotypes for sQTL.

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

Boxplot of normalized PSI stratified by genotypes for sQTL.

Description

Boxplot of normalized PSI stratified by genotypes for sQTL.

Usage

xQTLvisual_sqtlExp(
  variantName = "",
  phenotypeId = "",
  variantType = "auto",
  tissueSiteDetail = "",
  axis_text_size = 1.3,
  axis_title_size = 1.3,
  title_size = 1.4,
  xlab_text = "Genotypes",
  ylab_text = "Norm.Intron-Excision Ratio",
  ylim_v = NULL,
  title_text = "",
  jitter_color = NULL
)

Arguments

variantName	(character) name of variant, dbsnp ID and variant id is supported, eg. "rs138420351" and "chr17_7796745_C_T_b38".
phenotypeId	A character string. Format like: "chr1:497299:498399:clu_54863:ENSG00000239906.1"
variantType	(character) options: "auto", "snpId" or "variantId". Default: "auto".
tissueSiteDetail	(character) details of tissues in GTEx can be listed using tissueSiteDetailGTExv8 or tissueSiteDetailGTExv7
axis_text_size	(numberic) text size of the axis labels
axis_title_size	(numberic) text size of the axis title
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
ylim_v	(numeric vector) Set scale limits
title_text	(character) Title of the plot
jitter_color	(A character vector) Set the point color.

Value

A list containing variant detail, expression profile and a ggplot object.

Examples

expSqtl <-xQTLvisual_sqtlExp(variantName="chr11_66561248_T_C_b38",
          phenotypeId ="chr11:66348070:66353455:clu_8500:ENSG00000255468.6",
          tissueSiteDetail="Skin - Sun Exposed (Lower leg)")

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