API for CHRONOS
CHRONOS: A time-varying method for microRNA-mediated sub-pathway enrichment analysis
| Global functions | |
|---|---|
| .Sys.which2 | Source code |
| .betweennessCentrality | Source code |
| .bridgeness | Source code |
| .buildDirectories | Source code |
| .cleanDirectories | Source code |
| .collapseSubpaths | Source code |
| .createDirectories | Source code |
| .createExcelOutputMulti | Source code |
| .createExcelOutputSingle | Source code |
| .createMirnaLexicon | Source code |
| .degree | Source code |
| .doSafeParallel | Source code |
| .downloadPathways | Source code |
| .evaluateSubpaths | Source code |
| .extractLinearSubpathways | Source code |
| .extractNonLinearSubpathways | Source code |
| .filterExpressions | Source code |
| .filterLinearSubpaths | Source code |
| .filterMiScores | Source code |
| .filterRecords | Source code |
| .filterSubScore | Source code |
| .getEdgeScores | Source code |
| .getFilters | Source code |
| .getMeasures | Source code |
| .getMiRNAtargetsUrl | Source code |
| .getMiRecordsData | Source code |
| .getMiRecordsMiRNAs | Source code |
| .getMiScores | Source code |
| .getProcessedData | Source code |
| .getStatistics | Source code |
| .getValMiRecordsTargets | Source code |
| .getValTarbaseTargets | Source code |
| .indexSubpaths | Source code |
| .mRNAconversion | Source code |
| .markov | Source code |
| .nlSubpaths | Source code |
| .onAttach | Source code |
| .onLoad | Source code |
| .onUnload | Source code |
| .scoreSubpaths | Source code |
| .scoreSubpathways | Source code |
| .uniquifySubpaths | Source code |
| CHRONOSrun | Man page Source code |
| checkFile | Source code |
| cleanSubpath | Source code |
| convertMiRNANomenclature | Man page Source code |
| convertNomenclature | Man page Source code |
| createKEGGLink | Source code |
| createKEGGLinks | Source code |
| createPathwayGraphs | Man page Source code |
| createScoreFile | Source code |
| doCirclize | Source code |
| downloadKEGGPathwayList | Man page Source code |
| downloadMiRecords | Man page Source code |
| downloadPathway | Source code |
| downloadPathways | Man page Source code |
| expandMetabolicGraph | Source code |
| expandNonMetabolicGraph | Source code |
| expandSubpath | Source code |
| expansionEvaluator | Source code |
| exportSubpaths | Source code |
| exportToFile | Source code |
| extractLinearSubpathways | Man page Source code |
| extractNonLinearSubpathways | Man page Source code |
| fillMatrixList | Source code |
| filterLinearSubpaths | Source code |
| filterMatrix | Source code |
| fk | Source code |
| fullCollapse | Source code |
| getDoubleEdges | Source code |
| getEdgeTypes | Man page Source code |
| getLengths | Source code |
| getLinearPairs | Source code |
| getLinearSubpath | Source code |
| getPathwayType | Source code |
| getSplittingFactor | Source code |
| getSubpathwayGenes | Source code |
| idxToMat | Source code |
| importExpressions | Man page Source code |
| importGeneExpressions | Source code |
| importMiRNAExpressions | Source code |
| importMiRNAFile | Source code |
| indexSubpath | Source code |
| matrixToFile | Source code |
| matrixToLexicon | Source code |
| matrixToList | Source code |
| metabolicPathwayToGraph | Source code |
| miRNAsubScoring | Source code |
| mirParser | Source code |
| mirRenamer | Source code |
| nonMetabolicPathwayToGraph | Source code |
| normalize | Source code |
| optimalLengths | Source code |
| pathwayMeasures | Man page Source code |
| removeCompoundsMetabolicGraph | Source code |
| removeCompoundsNonMetabolicGraph | Source code |
| saveMiRNAFile | Source code |
| scoreFCI | Source code |
| scoreSubpathways | Man page Source code |
| scoreTVI | Source code |
| splitWork | Source code |
| subpathExpansion | Source code |
| subpathwayKEGGmap | Man page Source code |
| subpathwayMiRNAs | Man page Source code |
| unlistToMatrix | Source code |
| visualizeResults | Man page Source code |
