xQTLdownload_xqtlAllAsso: Download summary statistics of xQTL for a specified gene,...

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

Download summary statistics of xQTL for a specified gene, default:3'aQTL

Description

Download summary statistics of xQTL for a specified gene, default:3'aQTL

Usage

xQTLdownload_xqtlAllAsso(
  genes = "",
  geneType = "geneSymbol",
  tissue = "",
  mRNA_refseq = "",
  mRNA_gene_DF = NULL,
  type = "3'aQTL"
)

Arguments

genes	(character) gene symbol or gencode id (versioned or unversioned are both supported).
geneType	(character) options: "auto","geneSymbol" or "gencodeId". Default: "geneSymbol".
tissue	(character) details of tissues in GTEx can be listed using tissueSiteDetailGTExv8
mRNA_refseq	(character) If provided, only the 3'aQTL of mRNA will be downloaded
mRNA_gene_DF	(data.frame) If provided, mRNA-gencode mapping relationship will be loaded from this data.frame.
type	3'aQTL(default)

Value

A data.table object of xQTL dataset.

Examples

aQTL_DT <- xQTLdownload_xqtlAllAsso(genes=c("MMP7", "EPS15"), tissue="Lung")

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