get_exons: Get Exons

In gtexr: Query the GTEx Portal API

Get Exons

Description

This service returns exons from all known transcripts of the given gene.

• A versioned GENCODE ID is required to ensure that all exons are from a single gene.

• A dataset ID or both GENCODE version and genome build must be provided.

• Although annotated exons are not dataset dependent, specifying a dataset here is equivalent to specifying the GENCODE version and genome build used by that dataset.

GTEx Portal API documentation

Usage

get_exons(
  gencodeIds,
  gencodeVersion = NULL,
  genomeBuild = NULL,
  datasetId = "gtex_v8",
  page = 0,
  itemsPerPage = getOption("gtexr.itemsPerPage"),
  .verbose = getOption("gtexr.verbose"),
  .return_raw = FALSE
)

Arguments

gencodeIds	A character vector of Versioned GENCODE IDs, e.g. c("ENSG00000132693.12", "ENSG00000203782.5").
gencodeVersion	String (default = "v26"). GENCODE annotation release. Either "v26" or "v19".
genomeBuild	String. Options: "GRCh38/hg38", "GRCh37/hg19". Default = "GRCh38/hg38".
datasetId	String. Unique identifier of a dataset. Usually includes a data source and data release. Options: "gtex_v8", "gtex_snrnaseq_pilot".
page	Integer (default = 0).
itemsPerPage	Integer (default = 250). Set globally to maximum value 100000 with options(list(gtexr.itemsPerPage = 100000)).
.verbose	Logical. If TRUE (default), print paging information. Set to FALSE globally with options(list(gtexr.verbose = FALSE)).
.return_raw	Logical. If TRUE, return the raw API JSON response. Default = FALSE

Value

A tibble. Or a list if .return_raw = TRUE.

See Also

Other Reference Genome Endpoints: get_gene_search(), get_genes(), get_genomic_features(), get_gwas_catalog_by_location(), get_neighbor_gene(), get_transcripts()

Examples

## Not run: 
get_exons(gencodeIds = c("ENSG00000132693.12", "ENSG00000203782.5"))

## End(Not run)

gtexr documentation built on June 8, 2025, 10:26 a.m.