Co-Expression Analysis of Sequencing Data

clusterEntropy | Calculation of per-cluster entropy |

clusterInertia | Calculation of within-cluster inertia |

compareARI | Pairwise comparisons of ARI values among a set of clustering... |

compareICL | Compare corrected ICL values after data transformation |

convertLegacyCoseq | Convert legacy coseq objects |

coseq | Co-expression or co-abudance analysis of high-throughput... |

coseqHelpers | Accessors for the assigned cluster labels of a coseqResults... |

coseq-package | Co-expression and co-abundance analysis of high-throughput... |

coseqResults | coseqResults object and constructor |

coseqRun | Co-expression analysis |

fietz | RNA-seq data from the mouse neocortex in Fietz et al. (2012) |

kmeansProbaPost | Calculate conditional probabilities of cluster membership for... |

logclr | Calculate the Log Centered Log Ratio (logCLR) transformation |

matchContTable | Permute columns of a contingency table |

NormMixClus | Normal mixture model estimation and selection for a series of... |

NormMixClusK | Normal mixture model estimation |

NormMixParam | Calculate the mean and covariance for a Normal mixture model |

plot | Visualize results from coseq clustering |

summary | Summarize results from coseq clustering |

transformRNAseq | Transform RNA-seq data using common transformations |

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