Contents

generate$sources$opengwas

OpenGWAS source

Declares one or more IEU OpenGWAS studies as GWAS sources for generate$models(). Nothing is fetched here; retrieval happens during execution.

Usage

generate$sources$opengwas(
  ids,
  opengwas.jwt = NULL,
  wait.for.allowance = TRUE
)

Arguments

Argument	Description
`ids`	Character vector of OpenGWAS study ids, for example "ieu-b-2". Each id becomes one gwas.sumstats resource; an empty vector aborts.
`opengwas.jwt`	Character scalar or NULL (default). OpenGWAS JWT to authenticate with; NULL makes the fetch rule resolve one from ieugwasr::get_opengwas_jwt() at execution time. The token travels as request metadata and never enters resource identity.
`wait.for.allowance`	Logical scalar, default TRUE. On an allowance-depleted OpenGWAS response, sleep until the allowance resets and retry the call once; FALSE fails the fetch immediately.

Value

A ResourceSpecSet of unresolved gwas.sumstats specifications, one per id, for generate$models(sources = ).

Details

The loosest p-value threshold across the algorithms paired with this source decides how the study is retrieved: >= 0.1 downloads the full summary-statistics file, anything stricter pulls top hits only.

Examples

sources <- generate$sources$opengwas(c("ieu-b-2", "ieu-a-297"))