Files in ge11232002/CAGEr

Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining

R/AggregationFunctions.R R/AggregationMethods.R R/AllClasses.R R/ClusteringFunctions.R R/ClusteringMethods.R R/CorrelationMethods.R R/CumulativeDistributionFunctions.R R/CumulativeDistributionMethods.R R/ExportFunctions.R R/ExportMethods.R R/ExpressionProfilingMethods.R R/GetMethods.R R/ImportFunctions.R R/ImportMethods.R R/MergingMethods.R R/NormalizationFunctions.R R/NormalizationMethods.R R/QuantileWidthFunctions.R R/QuantileWidthMethods.R R/ShiftingFunctions.R R/ShiftingMethods.R README.md man/CAGEr-package.Rd man/CAGEset-class.Rd man/CTSSclusteringMethod.Rd man/CTSScoordinates.Rd man/CTSSnormalizedTpm.Rd man/CTSStagCount.Rd man/FANTOM5humanSamples.Rd man/FANTOM5mouseSamples.Rd man/aggregateTagClusters.Rd man/clusterCTSS.Rd man/consensusClusters.Rd man/consensusClustersTpm.Rd man/cumulativeCTSSdistribution.Rd man/exampleCAGEset.Rd man/exportCTSStoBedGraph.Rd man/exportToBed.Rd man/expressionClasses.Rd man/extractExpressionClass.Rd man/genomeName.Rd man/getCTSS.Rd man/getExpressionProfiles.Rd man/getShiftingPromoters.Rd man/importPublicData.Rd man/inputFiles.Rd man/inputFilesType.Rd man/librarySizes.Rd man/mergeCAGEsets.Rd man/mergeSamples.Rd man/normalizeTagCount.Rd man/plotCorrelation.Rd man/plotExpressionProfiles.Rd man/plotInterquantileWidth.Rd man/plotReverseCumulatives.Rd man/quantilePositions.Rd man/sampleLabels.Rd man/scoreShift.Rd man/setColors.Rd man/show-methods.Rd man/tagClusters.Rd vignettes/images/CAGEprotocol.pdf vignettes/images/CTSS_reverse_cumulatives_all_samples.pdf vignettes/images/CTSSbedGraph.pdf vignettes/images/ConsensusClustersBed.pdf vignettes/images/ConsensusClustersExpressionProfiles.pdf vignettes/images/CumulativeDistributionAndQuantiles.pdf vignettes/images/ShiftingPromoter.pdf vignettes/images/ShiftingScore.pdf vignettes/images/TagClustersBed.pdf vignettes/images/TagClustersInterquantileWidth.pdf