Computes phenotypic variance explained by a set of genetic and/or interaction effects

calculateContParams | Calculate the mean and variance of a quantitative variable in... |

calculateExpoParams | Calculate the mean and the variance of the exposure |

calculateVarFrac | Calculate the fraction of phenotypic variance explained by as... |

calculateVarFrac_v2 | Calculate the fraction of phenotypic variance explained by as... |

changeCoding | Change the coding of the variant if the reference allele... |

COHORT | Example of cohort description input file |

getAdditivelyCodedMatrix | Code additively the genotypes Sum the two columns per... |

getGenoCorMatrix | Compute the genotype correlation matrix. |

getMatCorSVD | Perform singular Value Decomposition on the correlation... |

get_vcf | This function is from the 'proxysnps' package available at... |

GWAS | Example of GWAS result input file |

ind | This is data included in the package |

preparePhenoTable | Check that the table contains the mandatory columns and keep... |

prepareResultTable | Check that the table contains the mandatory columns and keep... |

standardizeBeta | Derive betas in the standardized model from betas in the... |

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