sort_coords: Sort sum stats

In neurogenomics/MungeSumstats: Standardise summary statistics from GWAS

Sort sum stats

Description

Sort summary statistics table by genomic coordinates.

Usage

sort_coords(
  sumstats_dt,
  sort_coordinates = TRUE,
  sort_method = c("data.table", "GenomicRanges")
)

Arguments

sumstats_dt	data.table obj of the summary statistics file for the GWAS.
sort_method	Method to sort coordinates by: "data.table" (default)Uses setorderv, which is must faster than "GenomicRanges" but less robust to variations in some sum stats files. "GenomicRanges"Uses sort.GenomicRanges, which is more robust to variations in sum stats files but much slower than the "data.table" method.
sort_coords	Whether to sort by coordinates.

Value

Sorted sumstats_dt

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