cov_D1s

pybrops.model.vmat.util.cov_D1s(r, nself)

Calculate a D1 matrix.

This matrix represents the covariance (caused by linkage disequilibrium) between genomic loci one recombination event prior to selfing for random intermating.

Parameters:

• r (numpy.ndarray) – Recombination probability matrix.

• nself (int, inf) –

  Selfing generation number to derive gametes from.

  Example	Description
  nself = 0	Derive gametes from F1
  nself = 1	Derive gametes from F2
  nself = 2	Derive gametes from F3
  ...	etc.
  nself = inf	Derive gametes from SSD

Returns:

D1 – A D1 matrix of covariance between genomic loci.

Return type:

numpy.ndarray