Man pages for CLippmann/ORA
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... |
