Turn a CIViC gene response into a table — civic_parse

Pure.

Usage

civic_parse_gene(body)

Arguments

body: A parsed CIViC GraphQL response body.

Value

A one-row tibble of id, symbol, entrez_id, evidence_items, assertions, variants, and source_url. NULL when CIViC does not track the gene, which it reports as data.gene = null.

References

Griffith et al. (2017). CIViC is a community knowledgebase for expert crowdsourcing the clinical interpretation of variants in cancer. Nature Genetics 49(2), 170-174. doi:10.1038/ng.3774

Service documentation: https://civicdb.org/

Examples

body <- list(data = list(gene = list(
  id = 3867, name = "NF1", entrezId = 4763, link = "/features/3867",
  stats = list(evidenceItemCount = 56, assertionCount = 0, variantCount = 37)
)))
civic_parse_gene(body)
#> # A tibble: 1 × 7
#>   id    symbol entrez_id evidence_items assertions variants source_url          
#>   <chr> <chr>  <chr>              <dbl>      <dbl>    <dbl> <chr>               
#> 1 3867  NF1    4763                  56          0       37 https://civicdb.org…