xQTLdownload_sqtlAllAsso: Download summary statistics data for sQTLs with a specified...

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

Download summary statistics data for sQTLs with a specified gene or a tissue

Description

Download summary statistics data for sQTLs with a specified gene or a tissue

Usage

xQTLdownload_sqtlAllAsso(
  genes = "",
  geneType = "auto",
  tissue = "",
  clu_names = "",
  clu_geneid_DF = NULL
)

Arguments

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

Value

A data.table object of sQTL dataset.

Examples

sQTL_DT <- xQTLdownload_sqtlAllAsso(genes=c("MMP7","TP53"), tissue="Lung")

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