format_ensembl_vep: format ensembl vep

In frhl/our: genetic data analysis

Description

A function that converts UKBB MFI data into a format that is read-able by VEP 94. Note, that this function always assumes the input order ('ALT_ID', 'RS_ID', 'POS', 'A1', 'A2', 'MAF', 'MA', 'INFO')

Usage

format_ensembl_vep(
  path = NULL,
  df = NULL,
  strand = "+",
  data.table.fill = TRUE,
  data.table.verbose = T,
  use.alt.id = T
)

Arguments

path	string. Path to file. If NULL, will ignore path and exepcted argument df.
df	a data.frame.
strand	string. Assumes + strand.
data.table.fill	See data.table::fread (verbose)
data.table.verbose	should data.table stats be printed?
use.alt.id	Should alternative (unique ID) be used instead?

Value

a data.table

frhl/our documentation built on Feb. 5, 2021, 7:30 p.m.