Tests of null hypothesis of no linkage

• Null hypothesis:

  

• ``Traditional'' alternative hypothesis:

  

  Suitable for testing linkage at isolated markers.

• ``Modern'' alternative hypothesis:

  

  Suitable for testing linkage to candidate loci or with closely spaced markers in genome scans.

• Likelihood ratio tests
• Score test for quasi-recessive and quasi-dominant random mating models
  • Quasi-recessive random mating model
  • Quasi-dominant random mating model
• Linkage score test
  • No distinction between maternal and paternal sharing
  • Distinction between maternal and paternal sharing
• Some properties of the ``mean IBD'' statistic