Man pages for JLP-BioInf/comradesOO
Analysis of RNA Crosslinking Data

clusterGrangesListclusterGrangesList
clusterGrangesList_setclusterGrangesList<-
clusterNumbersclusterNumbers
clusterrnaCrosslinkclusterrnaCrosslink
clusterTableFoldedclusterTableFolded
clusterTableListclusterTableList
clusterTableList_setclusterTableList<-
compareKnowncompareKnown
compareKnownStructurescompareKnownStructures
featureInfofeatureInfo
findBasePairsRNAcoFold2findBasePairsRNAcoFold2
findBasePairsRNAfoldfindBasePairsRNAfold
findBasePairsRNAfold2findBasePairsRNAfold2
foldrnaCrosslinkfoldrnaCrosslink
getAdjacancyMatgetAdjacancyMat
getClusterClusterShortRangeWholegetClusterClusterShortRangeWhole
getDatagetData
getInteractionsgetInteractions
getMatricesgetMatrices
getReverseInteractionsgetReverseInteractions
groupgroup
InputFilesInputFiles
InputToGRangesInputToGRanges
makeExamplernaCrosslinkDataSetmakeExamplernaCrosslinkDataSet
matrixListmatrixList
matrixList_setmatrixList
plotClusterAgreementPlot a heatmap that plots the agreements between replicates...
plotClusterAgreementHeatPlot a heatmap that plots the agreements between replicates...
plotCombinedMatrixPlots a contact map of two chosen samples for chosen stages...
plotComparisonArcplotComparisonArc
plotEnsemblePCAplotEnsemblePCA
plotInteractionsPlots a contact map of interactions of each sample of an RNA...
plotInteractionsAveragePlots a contact map of interactions of all samples of an RNA...
plotMatricesPlots a number of contact maps to file of each sample for a...
plotMatricesAverageplotMatricesAverage
plotStructureplotStructure
printClustersFastprintClustersFast
readNumbersreadNumbers
rnaCrosslinkDataSetrnaCrosslinkDataSet
rnaCrosslinkOOrnaCrosslinkOO: A package for analysing a rnaCrosslink...
rnasrnas
rnaSizernaSize
sampleChimerassampleChimeras
sampleNamessampleNames
sampleTablesampleTable
subsetInputList2subsetInputList2
swapInputsswapInputs
swapInputs2swapInputs2
swapInputs3swapInputs3
topInteracterstopInteracters
topInteractionstopInteractions
topTranscriptstopTranscripts
trimClusterstrimClusters
JLP-BioInf/comradesOO documentation built on March 7, 2024, 11:10 p.m.