Man pages for JLP-BioInf/comradesOO
Analysis of RNA Crosslinking Data
| clusterGrangesList | clusterGrangesList |
| clusterGrangesList_set | clusterGrangesList<- |
| clusterNumbers | clusterNumbers |
| clusterrnaCrosslink | clusterrnaCrosslink |
| clusterTableFolded | clusterTableFolded |
| clusterTableList | clusterTableList |
| clusterTableList_set | clusterTableList<- |
| compareKnown | compareKnown |
| compareKnownStructures | compareKnownStructures |
| featureInfo | featureInfo |
| findBasePairsRNAcoFold2 | findBasePairsRNAcoFold2 |
| findBasePairsRNAfold | findBasePairsRNAfold |
| findBasePairsRNAfold2 | findBasePairsRNAfold2 |
| foldrnaCrosslink | foldrnaCrosslink |
| getAdjacancyMat | getAdjacancyMat |
| getClusterClusterShortRangeWhole | getClusterClusterShortRangeWhole |
| getData | getData |
| getInteractions | getInteractions |
| getMatrices | getMatrices |
| getReverseInteractions | getReverseInteractions |
| group | group |
| InputFiles | InputFiles |
| InputToGRanges | InputToGRanges |
| makeExamplernaCrosslinkDataSet | makeExamplernaCrosslinkDataSet |
| matrixList | matrixList |
| matrixList_set | matrixList |
| plotClusterAgreement | Plot a heatmap that plots the agreements between replicates... |
| plotClusterAgreementHeat | Plot a heatmap that plots the agreements between replicates... |
| plotCombinedMatrix | Plots a contact map of two chosen samples for chosen stages... |
| plotComparisonArc | plotComparisonArc |
| plotEnsemblePCA | plotEnsemblePCA |
| plotInteractions | Plots a contact map of interactions of each sample of an RNA... |
| plotInteractionsAverage | Plots a contact map of interactions of all samples of an RNA... |
| plotMatrices | Plots a number of contact maps to file of each sample for a... |
| plotMatricesAverage | plotMatricesAverage |
| plotStructure | plotStructure |
| printClustersFast | printClustersFast |
| readNumbers | readNumbers |
| rnaCrosslinkDataSet | rnaCrosslinkDataSet |
| rnaCrosslinkOO | rnaCrosslinkOO: A package for analysing a rnaCrosslink... |
| rnaCrosslinkQC | rnaCrosslinkQC |
| rnas | rnas |
| rnaSize | rnaSize |
| sampleChimeras | sampleChimeras |
| sampleNames | sampleNames |
| sampleTable | sampleTable |
| subsetInputList2 | subsetInputList2 |
| swapInputs | swapInputs |
| swapInputs2 | swapInputs2 |
| swapInputs3 | swapInputs3 |
| topInteracters | topInteracters |
| topInteractions | topInteractions |
| topTranscripts | topTranscripts |
| trimClusters | trimClusters |
