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phenoscanner genequeries in batches

Source: R/utils.R
genequeries.Rd

R/phenoscanner only allows for certain number of items supplied. This simple function return a large number of calls in batches as well as generating SNPIDs.

Usage

genequeries(
  genelist,
  catalogue = "pQTL",
  proxies = "EUR",
  p = 5e-08,
  r2 = 0.8,
  build = 37,
  wait = TRUE
)

Arguments

genelist

a list of SNPs.

catalogue

"None","eQTL","mQTL","methQTL","pQTL","GWAS".

proxies

"None", "AFR","AMR","EAS","EUR","SAS".

p

p value threshold.

r2

r2 for LD.

build

37, 38.

wait

a flag to wait for 1hr for every 50 genes.

Value

The returned value is a list containing genes and results.

Details

Batches are generated and queries are combined into one.

See also

phenoscanner

Examples

if (FALSE) {
# single gene
  genequeries("TNFRSF11B")
}