get_transcripts: Get Transcripts

In gtexr: Query the GTEx Portal API

Get Transcripts

Description

Find all transcripts of a reference gene.

• This service returns information about transcripts of the given versioned GENCODE ID.

• A genome build and GENCODE version must be provided.

• By default, this service queries the genome build and GENCODE version used by the latest GTEx release.

GTEx API Portal documentation

Usage

get_transcripts(
  gencodeId,
  gencodeVersion = "v26",
  genomeBuild = "GRCh38/hg38",
  page = 0,
  itemsPerPage = getOption("gtexr.itemsPerPage"),
  .verbose = getOption("gtexr.verbose"),
  .return_raw = FALSE
)

Arguments

gencodeId	String. A Versioned GENCODE ID of a gene, e.g. "ENSG00000065613.9".
gencodeVersion	String (default = "v26"). GENCODE annotation release. Either "v26" or "v19".
genomeBuild	String. Options: "GRCh38/hg38", "GRCh37/hg19". Default = "GRCh38/hg38".
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_exons(), get_gene_search(), get_genes(), get_genomic_features(), get_gwas_catalog_by_location(), get_neighbor_gene()

Examples

## Not run: 
get_transcripts(gencodeId = "ENSG00000203782.5")

## End(Not run)

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