Overrepresentation Analysis

adjMatrixTermsAncestors | Function to return the adjacency matrix of input GO term... |

certainty | Function to calculate the certainty for a GO term. |

checkORAparameters | Function to check if the parameters passed to 'dbtORA' are... |

dbtORA | Function to do an ORA including the drawing of DAGs. |

drawORA | To draw the gene ontology DAG containing ORA results'... |

GOroot2TermPaths | Function to get all paths from the gene ontology root of the... |

hypergeoTest | Function to do a one-sided hypergeometric test. |

importance | Function to calculate the importance for given information... |

infoValue | Function calculates the partial Shannon information of gene... |

NCBI2GeneName | Function to get GeneSymbol and GeneName for given NCBI... |

ontologyNr | Returns for given GOterm the corresponding gene ontology. |

ORA | Function to calculate a overrepresentation analysis. |

ORAfilename | Function to complete the OutFile name passed to dbtORA with... |

ORA-package | data bionics toolbox: Overrepresentation Analysis |

plotGOgraph | Function to draw and save gene ontology DAG. |

remarkableness | Function to calculate the remarkableness of a GO term. |

termDescription | Yields description of inputtet GO-term. |

termId | Casts GO-term numbers to GO-term IDs. |

termNr | Casts GO-term IDs to GO-term numbers. |

termpathsHeadlines | Calculates headlines for each path from root to GO detail... |

termsAncestors | Function returns vector of all ancestors in ontology for... |

updateORAdatabase | Function to update the database used for ORA. |

WriteORAresults | Function to write lrn file of GO terms and the computed... |

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