getter for genotype calls
Examples
data(mageSE_19)
vp = system.file("vcf", "chr19_50k.vcf.gz", package="biocXqtl")
mp = minorAlleleCounts(vp)
xmage19 = XqtlExperiment(mageSE_19, mp)
getCalls(xmage19)[1:4,1:4]
#> GRanges object with 4 ranges and 4 metadata columns:
#> seqnames ranges strand | HG00096 HG00100 HG00105
#> <Rle> <IRanges> <Rle> | <numeric> <numeric> <numeric>
#> rs541392352 19 60842 * | 0 0 0
#> rs534193774 19 62935-62937 * | 0 0 0
#> rs559839262 19 64705 * | 0 0 0
#> rs372156287 19 69984 * | 0 0 1
#> HG00108
#> <numeric>
#> rs541392352 0
#> rs534193774 0
#> rs559839262 0
#> rs372156287 0
#> -------
#> seqinfo: 1 sequence from GRCh38 genome; no seqlengths