pQTL Mediation analysis

Description Usage Value Examples

chr: character indicating the chromosome to use. This must match one of the names of genoprobs and map. pos: numeric value in Mb indicating the position on the chromosome. genoprobs: list containing 3-dimensional arrays of allele probs, one for each chromosome. In qtl2 format. Samples in rows, 8 founders in columns, markers in slices. map: list containing numeric vectors of marker positions in Mb. query_fxn: function for querying the CC_SNP data base. Obtain this

1	get.snp.probs(chr, pos, genoprobs, map, query_fxn)

an n x 1 numeric matrix.

1 2	query_fxn = qtl2::create_variant_query_func(cc_dbfile, filter = "type=='snp'") get_snp_probs = function(chr = "1", pos = 5.0, genoprobs = genoprobs, map = map, query_fxn = query_fxn)