Harmonize GWAS summary statistics headers — harmonize_sumstats

Reads a GWAS summary statistics text file (plain or .gz) and renames columns to a standardised vocabulary. Unmapped columns are left unchanged.

Usage

harmonize_sumstats_headers(input_file, column_map = NULL)

input_file: Path to a plain-text or gzip-compressed summary statistics file readable by data.table::fread().
column_map: Optional named character vector of per-cohort column renames. Names are source column names in the file; values are target harmonised names. Applied before the built-in dictionary so that user overrides take priority. Use build_column_map() to construct this vector from manifest col_* values. Default NULL (no custom mapping).

A data.table::data.table() with harmonised column names.

Harmonize summary statistics column headers

if (FALSE) { # \dontrun{
dt <- harmonize_sumstats_headers("my_gwas.txt.gz")
} # }