WriteORAresults: Function to write lrn file of GO terms and the computed...
In CLippmann/dbtORA: Overrepresentation Analysis

Description Usage Arguments Value Author(s)

Function to write lrn file of GO terms and the computed values, names file of GO terms and their descriptions and sparse matrix of genes and GO terms where the results of the overrepresentation analysis (ORA) are given.

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WriteORAresults(FileNameWithoutExt, ORAresults, OutDirectory = getwd(), 

InFileWithExt = "")

`FileNameWithoutExt`	String. Name of the output file without extention.
`ORAresults`	List of 4. For further details see function ORA. LRNresults List of 19 containing results relevant for lrn: LRNresults = list(GOtermNr, OntologyNr, NrOfGenesInUniverse, NrOfGenesInSample, NrOfAnnotationsInTerm, Up, ExpNrOfAnnsInTerm, ObservedNrOfAnnsInTerm, RelDiff, Pvalue, LogPvalue, Certainty, InfoValue, Remarkable, Importance, InfoContent, InfoContentORA, IsHeadline, IsDetail) Names of this list will be used as Header in FileNameWithoutExt.lrn. NAMESresults List of 3 containing results relevant for names: NAMESresults = list(GOtermNr, GOtermDescription, GOtermId) Names of this list will be used as Header in FileNameWithoutExt.names. Genes2GOtermsMatrix Matrix describing the annotations of genes to GO terms: Dimnames will be used as Key (rownames) respectively Header (colnames). GO2GOAdjMatrices List of 4 containing the adjacency matrices for each ontology and the combined sparse matrix representing the DAGs of significant GOterms: GO2GOAdjMatrices = list(GO2GOSparseAdjMatrix, AdjMatrixGO2GOBP, AdjMatrixGO2GOMF, AdjMatrixGO2GOCC)
`OutDirectory`	String. Default: current directory. Directory where the files should be saved.
`InFileWithExt`	String. Default: ”. FileName of original input file.