Use VanRaden Genomic Relationship when you need to calculate one off-diagonal genomic relationship using VanRaden's first-method scaling: the cross-product of centered marker genotypes divided by twice the sum of p(1−p) across markers. Negative estimates are possible after centering. Enter Centered genotype cross-product and Allele-frequency variance sum using the definitions and units below so the result can be reproduced.

Centered genotype cross-product

Cross-product of both individuals' centered marker dosages.

Allele-frequency variance sum

Sum of p(1−p) over the markers used in the cross-product.

The published tool contract uses this rule: Calculate one off-diagonal genomic relationship using VanRaden's first-method scaling: the cross-product of centered marker genotypes divided by twice the sum of p(1−p) across markers. Negative estimates are possible after centering.

Genomic relationship

The calculated genomic relationship.

The output is an estimate tied to the stated model and coefficients; it is not a direct measurement and should retain that label when reported.

Retain the original Centered genotype cross-product and Allele-frequency variance sum values and their units alongside the result. GEBV Blend is useful when you instead need to blend a genomic estimated breeding value and a pedigree estimated breeding value using a weighted average. Additive Relationship provides another view by helping you compute the additive relationship contribution of one common ancestor path as the number of paths times 0.5 raised to the generation distance.

• GEBV Blend

  Blend a genomic estimated breeding value and a pedigree estimated breeding value using a weighted average.

• Additive Relationship

  Compute the additive relationship contribution of one common ancestor path as the number of paths times 0.5 raised to the generation distance.

• Pedigree F Accumulated

  Accumulate an inbreeding coefficient as the base coefficient plus the remaining relationship budget times one path contribution.