EBIquery_allTerm: Query supported terms (phenotypes, studies, tissues) in eQTL...

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

Query supported terms (phenotypes, studies, tissues) in eQTL catalogue

Description

Query supported terms (phenotypes, studies, tissues) in eQTL catalogue

Usage

EBIquery_allTerm(term = "genes", termSize = 2000)

Arguments

term	"associations", "molecular_phenotypes", "studies", "tissues", "qtl_groups", "genes" or "chromosomes".
termSize	Number of fetched term.

Value

A data.table object.

Examples

# Fetch associatons:
associations <- data.table::rbindlist(EBIquery_allTerm("associations",termSize=0))

# fetch molecular_phenotypes:
molecular_phenotypes <- EBIquery_allTerm("molecular_phenotypes", termSize=10)

# fetch studies:
studies <- EBIquery_allTerm("studies")

# fetch tissues:
tissues <- EBIquery_allTerm("tissues")

# fetch tissue-study mapping relationships
tissue_S <- EBIquery_allTerm( paste0("tissues/", "UBER_0002046","/studies" ))

# fetch qtl groups:
qtl_groups <- EBIquery_allTerm("qtl_groups")

# Fetch genes:
geneList <- EBIquery_allTerm("genes", termSize=10)

# Fetch datasets (API v2):
datasets <- EBIquery_allTerm("datasets", termSize=100)
datasets[datasets$study_label=="GTEx" & datasets$quant_method=="ge", ]

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