locusMap.list: List to describe the locus map data
In CGEN: An R package for analysis of case-control studies in genetic epidemiology

The list to describe the locus map data for Manhattan.plot.

The format is: List of 8

file: File containing the locus map data. This file must contain at least three columns: a column for the SNP names, a column for the chromosomes, and a column for the location of the SNP on the chromosome. The location should be numeric values. No default.
file.type: 1, 3 or 4 (see details). The default is 3.
delimiter: The delimiter used in the files. The default is "\t" (a tab).
header: 0 or 1 if the file contains a header of variable names. The default is 0.
snp.var: Variable name (e.g. rs number) or column number of the SNP (locus) variable. No default.
chrm.var: Variable name (e.g. chromosome number) or column number of the chromosome variable. No default.
loc.var: Variable name or column number of the location variable, which denotes the SNP's position on the chromosome. This variable should be numeric. No default.