Files in SNPhood

SNPhood: Investigate, quantify and visualise the epigenomic neighbourhood of SNPs using NGS data

R/core.R R/misc.R R/SNPhood.R R/visualize.R R/zzz.R R/DataClasses.R man-roxygen/plotGraph.R man-roxygen/readGroupColors.R man-roxygen/SNPhood.R man-roxygen/regions.R man-roxygen/normalize.R man-roxygen/dataset.R man-roxygen/object.R man-roxygen/fileToPlot.R man-roxygen/plotRegionBoundaries.R man-roxygen/sizePoints.R man-roxygen/signThreshold.R man-roxygen/plotRegionLabels.R man-roxygen/returnOnlyPlotNotObject.R man-roxygen/colorPalette.R man-roxygen/ggplotReturn.R man-roxygen/verbose_FALSE.R man-roxygen/maxWidthLabels.R man-roxygen/plotEndPos.R man-roxygen/nClusters.R man-roxygen/printPlot.R man-roxygen/datasets.R man-roxygen/ylim.R man-roxygen/plotStartPos.R man-roxygen/verbose_TRUE.R man-roxygen/plotChr.R man-roxygen/readGroup.R man-roxygen/region.R man-roxygen/readGroups.R vignettes/workflow.Rmd vignettes/IntroductionToSNPhood.Rmd man/renameBins.Rd man/deleteDatasets.Rd man/annotation-methods.Rd man/plotGenotypesPerSNP.Rd man/annotationReadGroups.Rd man/convertToAllelicFractions.Rd man/annotationBins2.Rd man/testForAllelicBiases.Rd man/deleteReadGroups.Rd man/plotAndSummarizeAllelicBiasTest.Rd man/SNPhood.o.Rd man/analyzeSNPhood.Rd man/plotRegionCounts.Rd man/renameDatasets.Rd man/annotationDatasets.Rd man/associateGenotypes.Rd man/changeObjectIntegrityChecking.Rd man/annotationRegions.Rd man/renameRegions.Rd man/counts-method.Rd man/plotAllelicBiasResults.Rd man/plotAndCalculateCorrelationDatasets.Rd man/parameters-methods.Rd man/getDefaultParameterList.Rd man/plotFDRResults.Rd man/mergeReadGroups.Rd man/deleteRegions.Rd man/renameReadGroups.Rd man/annotationBins.Rd man/enrichment-methods.Rd man/collectFiles.Rd man/plotBinCounts.Rd man/results.Rd man/readGroups-methods.Rd man/plotAndClusterMatrix.Rd man/regions-methods.Rd man/SNPhood-class.Rd man/plotAndCalculateWeakAndStrongGenotype.Rd man/plotClusterAverage.Rd man/bins-methods.Rd man/plotGenotypesPerCluster.Rd man/SNPhood.Rd man/datasets-methods.Rd man/plotAllelicBiasResultsOverview.Rd inst/doc/IntroductionToSNPhood.R inst/doc/workflow.Rmd inst/doc/workflow.R inst/doc/IntroductionToSNPhood.Rmd