snpinfo_to_map: Convert SNP info to map

In byandell/qtl2pattern: Pattern Support for 'qtl2' Package

Convert SNP info to map

Description

Convert SNP info to map

Usage

snpinfo_to_map(snpinfo)

Arguments

snpinfo

Data frame with SNP information with the following columns (the last three are generally derived from with index_snps): chr - Character string or factor with chromosome pos - Position (in same units as in the "map" attribute in genoprobs. sdp - Strain distribution pattern: an integer, between 1 and 2^n - 2 where n is the number of strains, whose binary encoding indicates the founder genotypes snp - Character string with SNP identifier (if missing, the rownames are used). index - Indices that indicate equivalent groups of SNPs. intervals - Indexes that indicate which marker intervals the SNPs reside. on_map - Indicate whether SNP coincides with a marker in the genoprobs

Value

map as list of vectors of marker positions.

byandell/qtl2pattern documentation built on Nov. 9, 2023, 7:57 p.m.