read_log_pval: Read -log10 p-value column

In neurogenomics/MungeSumstats: Standardise summary statistics from GWAS

Read -log10 p-value column

Description

Parse p-value column in VCF file.of other general -loq10 p-values

Usage

read_log_pval(
  sumstats_dt,
  mapping_file = sumstatsColHeaders,
  return_list = TRUE
)

Arguments

sumstats_dt	Summary stats data.table.
mapping_file	MungeSumstats has a pre-defined column-name mapping file which should cover the most common column headers and their interpretations. However, if a column header that is in youf file is missing of the mapping we give is incorrect you can supply your own mapping file. Must be a 2 column dataframe with column names "Uncorrected" and "Corrected". See data(sumstatsColHeaders) for default mapping and necessary format.
return_list	Binary, whether to return the dt in a list or not - list is standard for the format_sumstats() function.

Value

Null output.

neurogenomics/MungeSumstats documentation built on Aug. 10, 2024, 5:59 a.m.