StatePaintR: a tool for creating and documenting reproducible chromatin state annotations from StateHub

abstractionLayer | abstractionLayer |

calc_auprg | Calculate area under the Precision-Recall-Gain curve |

create_prg_curve | Precision-Recall-Gain curve |

decisionMatrix | decisionMatrix |

decisionMatrix-class | decisionMatrix class |

doNotScore | doNotScore |

doNotSplit | doNotSplit |

ExportStatePaintR | Write StatePaintR object to bedfiles |

get.decision.matrix | Retrieve Decision Matrix from StateHub |

PaintStates | Run a StatePaintR decisionMatrix against a group of files... |

PlotStates | PlotStates - plotting the results of PaintStates |

precision_gain | Precision Gain |

PRG | PRG - generate a Precision Recall Gain object to show... |

prg_convex_hull | Create the convex hull of the Precision-Recall-Gain curve |

recall_gain | Recall Gain |

stateColors | stateColors |

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