Perform Bayesian finemapping using the Approximate Bayes Factor approach

Description

Usage

calc_credset(
  df,
  locus_marker_col = locus_marker,
  effect_col = effect,
  se_col = std_err,
  samplesize_col = samplesize,
  cred_interval = 0.99
)

Arguments

df

Dataframe containing GWAS summary statistics

locus_marker_col

Column containing a locus-level identifier

effect_col

Column containing effect estimates

se_col

Column containing standard errors fo the effect estimates

samplesize_col

Column containing sample sizes

cred_interval

Credible interval for the fine-mapped credible sets (default = 0.99; 0.95 is another common but artbitrarily determined interval)

Value

A data.frame containing credible sets at each locus. For each variant within the credible set, the prior probability of being the casual variant is provided.

See also

Other finemapping: run_carma()

Examples

if (FALSE) {
calc_credset(gwas_df)
}