genoVarCovarMatFunc

Compute the *p SNPs*-by-*p SNPs* variance-covariance matrix of SNP dosages. This is an estimator of the LD between loci within a given population.

genoVarCovarMatFunc(Z)

Arguments

Z	column-centered matrix of SNP dosages. Assumes SNPs in Z were originally coded 0, 1, 2 were column centered.

Value

NOTE: this matrix is going to be big in practice. The *p SNPs*-by-*p SNPs* variance-covariance matrix of SNP dosages. may be worth computing in an R session using multi-threaded BLAS

Examples

Z<-centerDosage(M)
#> Error in is.data.frame(x): object 'M' not found
genoVarCovarMat<-genoVarCovarMatFunc(Z)
#> Error in nrow(Z): object 'Z' not found