get_median_exon_expression {gtexr} | R Documentation |
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.
Usage
get_median_exon_expression(
gencodeIds,
datasetId = "gtex_v8",
tissueSiteDetailIds = NULL,
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"). |
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
|
page |
Integer (default = 0). |
itemsPerPage |
Integer (default = 250). Set globally to maximum value
100000 with |
.verbose |
Logical. If |
.return_raw |
Logical. If |
Value
A tibble. Or a list if .return_raw = TRUE
.
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)