Provide a list of rsids that you may want to perform LD operations on to
check if they are present in the LD reference panel. If they are not then
some functions e.g. ld_clump will exclude them from the analysis,
so you may want to consider how to handle those variants in your data.
Usage
ld_reflookup(rsid, pop = "EUR", opengwas_jwt = get_opengwas_jwt())Arguments
- rsid
Array of rsids to check
- pop
Super-population to use as reference panel. Default =
"EUR". Options are"EUR","SAS","EAS","AFR","AMR"- opengwas_jwt
Used to authenticate protected endpoints. Login to https://api.opengwas.io to obtain a jwt. Provide the jwt string here, or store in .Renviron under the keyname OPENGWAS_JWT.#' @param bfile If this is provided then will use the API. Default =
NULL