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Get Median Exon Expression

Source: R/get_median_exon_expression.R
get_median_exon_expression.Rd

Find median exon expression data.

  • Returns median exon read counts, in tissues, of a collapsed gene model.

  • Results may be filtered by dataset, gene or tissue, but at least one gene must be provided

By default, this service queries the latest GTEx release.

GTEx Portal API documentation

Usage

get_median_exon_expression(
  gencodeIds,
  datasetId = "gtex_v8",
  tissueSiteDetailIds = NULL,
  page = 0,
  itemsPerPage = 250
)

Arguments

gencodeIds

A character vector of Versioned GENCODE IDs, e.g. c("ENSG00000132693.12", "ENSG00000203782.5").

datasetId

String. Unique identifier of a dataset. Usually includes a data source and data release. Options: "gtex_v8", "gtex_snrnaseq_pilot".

tissueSiteDetailIds

Character vector of IDs for tissues of interest. Can be GTEx specific IDs (e.g. "Whole_Blood"; use get_tissue_site_detail() to see valid values) or Ontology IDs.

page

Integer (default = 0).

itemsPerPage

Integer (default = 250).

Value

A tibble.

See also

Other Expression Data Endpoints: get_clustered_median_exon_expression(), get_clustered_median_gene_expression(), get_clustered_median_junction_expression(), get_clustered_median_transcript_expression(), get_expression_pca(), get_gene_expression(), get_median_gene_expression(), get_median_junction_expression(), get_median_transcript_expression(), get_single_nucleus_gex(), get_single_nucleus_gex_summary(), get_top_expressed_genes()

Examples

if (FALSE) { # \dontrun{
# median exon expression values for CRP, filtered for whole blood
get_median_exon_expression(gencodeIds = "ENSG00000132693.12",
                           tissueSiteDetailIds = "Whole_Blood")
} # }