Calculate covariance matrix and transform into triangular form for visualization — take.ld.pairs • zqtl

Calculate covariance matrix and transform into triangular form for visualization

take.ld.pairs(X, cutoff, stdize)

Arguments

X: genotype matrix
cutoff: LD covariance cutoff (default: 0.05)
stdize: standardize genotype matrix (default : FALSE)

Value

data.frame(x, y, x.pos, y.pos, cov)