Reads predictive p-values from files output from BGmix. Also (optionally) reads posterior predictive distributions of data.

1 | ```
ccPred(filedir, q.partial = T, q.trace = F, quiet = T)
``` |

`filedir` |
character. The name of the output directory created by BGmix. |

`q.partial` |
logical. Read partial predictive p-values? |

`q.trace` |
logical. Read posterior predictive distributions of data? |

`quiet` |
logical. Parameter passed to 'scan'. (If false, 'scan' prints details of number of items read in.) |

`pval.ss.post` |
matrices no. genes x no. conditions. Posterior predictive p-values for sum of squares for each gene in each condition. |

`pval.ss.mix` |
matrices no. genes x no. conditions. Mixed predictive p-values for sum of squares for each gene in each condition. |

`pval.ss.part` |
matrices no. genes x no. conditions. Partial predictive p-values for sum of squares for each gene in each condition. |

`pval.ybar.post` |
matrices no. genes x no. mixture components. Posterior predictive p-values for ybar for each gene in each mixture component. |

`pval.ybar.mix2` |
matrices no. genes x no. mixture components. Mixed predictive p-values for ybar for each gene in each mixture component. |

`pval.ybar.part` |
matrices no. genes x no. mixture components. Partial predictive p-values for ybar for each gene in each mixture component. |

`ybar.pred1` |
Posterior predictive distribution of ybar. |

`ybar.pred3` |
Mixed predictive distribution of ybar. |

`ss.pred1` |
Posterior predictive distribution of sums of squares. |

`ss.pred2` |
Mixed predictive distribution of sums of squares. |

Additional output: pval.ybar.mix1 and pval.ybar.mix3 are alternative versions of mixed predictive p-values (currently not used). Also, ybar.pred2 and ybar.pred4 are the corresponding alternative mixed predictive distributions for ybar.

Alex Lewin

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Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

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