Polygenic Inverse Gamma Shifts

compute.sqrt.dist | Compute the vector of branch scaling parameters |

dmvnorminvgamma | Compute the pdf for multi-variate normal-inverse-gamma random... |

dnorminvgamma | Compute the pdf for normal-inverse-gamma random variates |

GO.groups | GO terms and genes |

good.groups | Find groups represented in the data |

mean_invgamma | The mean of the inverse gamma distribution |

normalize.vcv | Compute the variance-covariance matrix of normalized... |

norminvgamma.shift.like.norm | Calculate the likelihood of normalized comparative data as... |

norminvgamma.shift.sim.group | Simulate phylogenetic comparative data as Brownian motions... |

OU.invgamma.like.norm | Calculate the likelihood of normalized comparative data as... |

OU.invgamma.sim.group | Simulate phylogenetic comparative data as OUs with inverse... |

OU.vcv | The variance covariance matrix for an Ornstein-Uhlenbeck... |

plot_logfoldchange | Plot densities of expression differences, possibly normalized |

plot_wAICbarplot | Plot a barplot of AIC weights for each model and each gene... |

read.exp | Read gene expression data from a file, sorted by a... |

read.groups | Read in the members of a gene group |

remove.from.genome | Remove genes from a specified group from the data |

rnorminvgamma | Draw normal-inverse-gamma distributed random variates |

test.groups | Test all possible single-rate shift Brownian motion models... |

test.subtrees | Test all possible single-rate shift Brownian motion models... |

var_invgamma | The variance of the inverse gamma distribution |

yeast.homozygote | Yeast homozygote transcription profiles |

yeast.hybrid | Yeast hybrid transcription profiles |

yeast.tree | Phylogenetic tree of yeast species |

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