Process genotype data from survival experiment

AnalyseExpt | A function to analyse a selection experiment, including... |

AnalyseSplittedExpt | A function to analyse a selection experiment, including... |

CalcFreqGt | A function to count occurences of genotypes in a genotype... |

CalcFreqVariant | A function to count occurences of genotypes in a variant... |

CalcOddedPick | A function to calculate the number of picked lives per... |

CalcOddsPredation | A function to calculate odds for predation from observed... |

CalcProbsSelection | A function to calculate probabilities that observed... |

CensorLowDepth | A function to replace genotype data with low depth by NA |

ConvertFileToLogic | A function to turn a file into a logical vector. Useful for... |

CountSignSnps | A function to count snps with a low probability of being due... |

EstimateFST | A function to estimate the FST of a variant using the Weir &... |

ExtractGt | A function to extract a genotype from a vcfR::VCF object. |

FindIdsAlFreqs | A function to find the ids of freq.al columns in a frequency... |

FindIdsGtCounts | A function to find the ids of counts.gt columns in a... |

IsAtLeastNARatio | A function to check if the ratio of NA in a vector is over a... |

IterRandPick | A function to iterate significant snps counting in a genotype... |

LoadVcf | A function to get a filtered (and possibly splitted)... |

OmitPoorSamples | A function to remove columns with a high ratio of missing... |

OmitPoorVariants | A function to remove rows with a high ratio of missing data... |

PermutRandSurv | A function to calculate probabilities of neutral model and... |

RmIndels | A function to remove indel variants from a vcfR::VCF object |

RmNonBiallelics | A function to remove non-biallelic variants from a vcfR::VCF... |

SliceDfColumns | A function to slice data frames without loosing column names |

SliceDfRows | A function to slice data frames without loosing row names |

SplitGt | A function to split a genotype matrix two genotype matrix... |

SplitVcf | A function to split a vcfR::VCF object in two vcfR::VCF... |

SplitVect | A function to split a vector into two vectors according to a... |

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