ld_clump_api: Perform clumping on the chosen variants using through API

In Sabor117/PathWAS: Creates predictive models of biological pathway functionality

Perform clumping on the chosen variants using through API

Description

Perform clumping on the chosen variants using through API

Usage

ld_clump_api(
  dat,
  clump_kb = 10000,
  clump_r2 = 0.1,
  clump_p,
  pop = "EUR",
  access_token = check_access_token()
)

Arguments

dat	Dataframe. Must have a variant name column ('variant') and pval column called 'pval'. If 'id' is present then clumping will be done per unique id.
clump_kb	Clumping kb window. Default is very strict, '10000'
clump_r2	Clumping r2 threshold. Default is very strict, '0.001'
clump_p	Clumping sig level for index variants. Default = '1' (i.e. no threshold)
pop	Super-population to use as reference panel. Default = '"EUR"'. Options are '"EUR"', '"SAS"', '"EAS"', '"AFR"', '"AMR"'
access_token	Google OAuth2 access token. Used to authenticate level of access to data

Value

Data frame of only independent variants

Sabor117/PathWAS documentation built on Nov. 29, 2024, 7:44 a.m.