standardise.sumstats.column.headers.crossplatform: Standardise the column headers in the Summary Statistics...

In NathanSkene/MAGMA_Celltyping: Find Causal Cell-Types Underlying Complex Trait Genetics

Standardise the column headers in the Summary Statistics files (CROSSPLATFORM)

Description

Use a reference data table of common column header names (stored in sumstatsColHeaders.rda) convert them to a standard set, i.e. chromosome –> CHR

Usage

standardise.sumstats.column.headers.crossplatform(first_line)

Arguments

first_line

String containing the first line of the sumstats file

Details

This function does not check that all the required column headers are present

The amended header is written directly back into the file

Value

The amended column headers (also the column headers will be written directly into the summary statistics file)

Examples

## Not run: 
path <- MAGMA.Celltyping::get_example_gwas()
first_line <- readLines(path)[1]
col_headers <- MAGMA.Celltyping:::standardise.sumstats.column.headers.crossplatform(
     first_line = first_line)

## End(Not run)

NathanSkene/MAGMA_Celltyping documentation built on Aug. 21, 2023, 8:55 a.m.