# Write design and filter matrices for log-linear model of linkage disequilibrium between two codominant autosomal loci

### Description

Write design and filter matrices for log-linear model of linkage disequilibrium between two codominant autosomal loci.

### Usage

1 |

### Arguments

`nall1` |
is number of alleles at first codominant locus. |

`nall2` |
is number of alleles at first codominant locus. |

`formula` |
is character string listing terms to be included in model, where a1 denotes allele frequencies for locus 1, p1 the deviation from Hardy-Weinberg expectations for locus1, and d the intragametic allelic association parameters. |

### Value

A list with components:

`Geno` |
is a dummy contingency table showing the expected order. |

`s` |
is a vector of indices, one for each cell of the full (unobserved)
contingency table, representing the appropriate cell of |

`X` |
is the design matrix. |