training of logical models from indirect measurements of perturbation experiments

absorption | applies absorption law to a disjuncitve normal form |

absorptionII | applies "inverse" absorption law to a disjuncitve normal form |

bnem | Boolean Nested Effects Model main function |

computeFc | computes response scheme given an activation pattern... |

convertGraph | converts a disjunctive normal form into a conjunctive normal... |

dummyCNOlist | creates a general CNOlist object from meta information |

epiNEM2Bg | Convert epiNEM model into general Boolean graph. Only needed... |

findResiduals | calculates residuals (data and optimized network do not... |

heatmapOP | heatmap function based on the lattice package with several... |

plotDnf | function for visualizing graphs in normal form |

randomDnf | creates a random normal form or hyper-graph |

reduceGraph | reduces the size of a graph if ossible to an equivalent... |

simulateStatesRecursive | simulates the activation pattern (truth table) of a... |

transClose | calculates transitive closure of a hyper-graph |

transRed | calculates transitive reduciton of a hyper-graph in normal... |

validateGraph | plotting the observed response scheme of an effect reporter... |

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