xQTLdownload_sc: Download all sc-eQTL associations for a specified gene

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

Download all sc-eQTL associations for a specified gene

Description

Download all sc-eQTL associations for a specified gene

Usage

xQTLdownload_sc(
  gene = "BIN3",
  geneType = "geneSymbol",
  cell_type = "Astrocytes",
  cell_state = "",
  qtl_type = "Cell-type eQTL",
  study_name = "Bryois2022NN"
)

Arguments

gene	(character) gene symbol or gencode id (versioned or unversioned are both supported).
geneType	(character) options: "auto","geneSymbol" or "gencodeId". Default: "geneSymbol".
cell_type	(character)cell types supported in the list of study_info from 'xQTLquery_scInfo'
cell_state	(character)cell states supported in the list of study_info from 'xQTLquery_scInfo'
qtl_type	(character)QTL types supported in the list of study_info from 'xQTLquery_scInfo'
study_name	(character)study name supported in the list of study_info from 'xQTLquery_scInfo'

Value

A data.table object

Examples

 sceQTL_dt <- xQTLdownload_sc(gene="TP53", cell_type = "B Cell", cell_state="-",
                 qtl_type="Cell-type-specific eQTL", study_name = "Resztak2022biorxiv")

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