Files in ge11232002/CAGEr
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
.Rbuildignore
.gitignore
CAGEr.Rproj
DESCRIPTION
NAMESPACE
NEWS
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
inst/CITATION
inst/extdata/Zf.30p.dome.chr17.ctss
inst/extdata/Zf.high.chr17.ctss
inst/extdata/Zf.prim6.rep1.chr17.ctss
inst/extdata/Zf.prim6.rep2.chr17.ctss
inst/extdata/Zf.unfertilized.egg.chr17.ctss
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/CAGEr.Rnw
vignettes/CAGEr.bib
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/Pairwise_tag_count_correlation.jpg
vignettes/images/ShiftingPromoter.pdf
vignettes/images/ShiftingScore.pdf
vignettes/images/TagClustersBed.pdf
vignettes/images/TagClustersInterquantileWidth.pdf
