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Check for necessary columns

Source: R/check_required_cols.R
check_required_cols.Rd

Check whether the input data (dat) has the minimum columns required to run each fine-mapping method, as well as suggested columns.

Usage

check_required_cols(
  dat,
  finemap_methods = NULL,
  case_control = TRUE,
  verbose = TRUE
)

Arguments

dat

data.table containing SNP-level data to fine-map.

finemap_methods

Fine-mapping methods to run. See lfm for a list of all fine-mapping methods currently available.

case_control

Whether the summary statistics come from a case-control study (e.g. a GWAS of having Alzheimer's Disease or not) (TRUE) or a quantitative study (e.g. a GWAS of height, or an eQTL) (FALSE).

verbose

Print messages.

Examples

if (FALSE) { # \dontrun{
dat <- echodata::BST1
finemap_methods <- check_required_cols(dat=dat)
} # }