get_median_exon_expression: Get Median Exon Expression

In gtexr: Query the GTEx Portal API

Get Median Exon Expression

Description

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

## Not run: 
# median exon expression values for CRP, filtered for whole blood
get_median_exon_expression(gencodeIds = "ENSG00000132693.12",
                           tissueSiteDetailIds = "Whole_Blood")

## End(Not run)

gtexr documentation built on Sept. 19, 2024, 5:06 p.m.