An implementation of association analysis tools

boot.lm | Sampling of linear model parameters using bootstrap method. |

calibration.mad | calibrate zscore with mad estimator of variance |

gwas.linearmodel | X = mu + G_j * B + epsilon |

gwas.linearmodel.ridge | X = G * B + epsilon + regularisation ridge |

lfmm.ml.ridge | LFMM with ridge likelihood |

lfmm.ml.ridge2 | LFMM with ridge likelihood implementation 2 |

lfmm.ml.ridge2.lr | LFMM with ridge likelihood implementation 2 + LR for score |

lfmm.ml.ridge2.normalization | LFMM with ridge likelihood implementation 2 + normalization |

lfmm.ml.ridge3 | LFMM with ridge likelihood implementation 3 |

linear_model | only LM |

sample.binary.model | Sample P(G) = logistic(mu + UV^T + XB^T + e) |

sample.normal.model | Sample G = mu + UV^T + XB^T + e |

sample.phenotype | Sample Phenotype = Somme(B_j * G_j) + epsilon Same simulation... |

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