In HAPim: HapIM

Description Usage Arguments Value Author(s) References See Also

The function calculates the value of log likelihood of HAPimLDL method under alternative hypothesis H1. It can be viewed as an internal function. The user does not have to call it by himself.

1 2 3 4 | ```
vrais.LDL.add(moyenne.pere, alpha.Q, s, CD, perf, PLA, DL.m,
DL.chrom1,
DL.chrom2, desc.pere, mean.gene)
``` |

`moyenne.pere` |
results provided by |

`alpha.Q` |
parameter of QTL effect. |

`s` |
parameter of the error variance. |

`CD` |
numeric vector of length=number of individuals which contains the CD of individuals. var(perf$_i$)=s/CD$^2_i$ |

`perf` |
numeric vector of length=number of individuals which contains the performances of individuals. |

`PLA` |
numeric vector (number of individuals) which contains transmission probabilities at a single test position. |

`DL.m` |
results provided by |

`DL.chrom1` |
results provided by |

`DL.chrom2` |
results provided by |

`desc.pere` |
results provided by |

`mean.gene` |
parameter of the performance mean. |

The returned value is the value of log likelihood of HAPimLDL method under alternative hypothesis H1.

S. Dejean, N. Oumouhou, D. Estivals, B. Mangin

publication to be submitted: C. Cierco-Ayrolles, S. Dejean, A. Legarra, H. Gilbert, T. Druet, F. Ytournel, D. Estivals, N. Oumouhou and B. Mangin. Combining linkage analysis and linkage disequilibrium for QTL fine mapping in animal pedigrees.

`moyenne.pere`

, `descendant.pere`

, `proba.DL`

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