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Get Full Get Collapsed Gene Model Exon

Source: R/get_full_get_collapsed_gene_model_exon.R
get_full_get_collapsed_gene_model_exon.Rd

This service allows the user to query the full Collapsed Gene Model Exon of a specific gene by gencode ID

GTEx Portal API documentation

Usage

get_full_get_collapsed_gene_model_exon(
  gencodeId,
  datasetId = "gtex_v8",
  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".

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 Datasets Endpoints: get_annotation(), get_collapsed_gene_model_exon(), get_downloads_page_data(), get_file_list(), get_functional_annotation(), get_linkage_disequilibrium_by_variant_data(), get_linkage_disequilibrium_data(), get_sample_datasets(), get_subject(), get_tissue_site_detail(), get_variant(), get_variant_by_location()

Examples

get_full_get_collapsed_gene_model_exon(gencodeId = "ENSG00000203782.5")
#> 
#> ── Paging info ─────────────────────────────────────────────────────────────────
#> • numberOfPages = 1
#> • page = 0
#> • maxItemsPerPage = 250
#> • totalNumberOfItems = 2
#> # A tibble: 2 × 14
#>   featureType       end genomeBuild chromosome exonNumber geneSymbolUpper exonId
#>   <chr>           <int> <chr>       <chr>      <chr>      <chr>           <chr> 
#> 1 exon        153259733 GRCh38/hg38 chr1       1          LOR             ENSG0…
#> 2 exon        153262122 GRCh38/hg38 chr1       2          LOR             ENSG0…
#> # ℹ 7 more variables: datasetId <chr>, start <int>, dataSource <chr>,
#> #   gencodeId <chr>, geneSymbol <chr>, gencodeVersion <chr>, strand <chr>