Files in gCrisprTools

Suite of Functions for Pooled Crispr Screen QC and Analysis

R/fileutilities.R R/GenePvalsFromEset.R R/StackedGuides.R R/GenerateSignalSummary.R R/ViewGuides.R R/RankByRep.R R/ExtractKeyFromAnnotation.R R/DirTest.R R/generateCAT.R R/ViewTopTargets.R R/discardTraceReads.R R/AlignmentBarchart.R R/RRAalpha.R R/Raw_read_densities.R R/Crispr_Enrichment_test.R R/GuideCDF.R R/NormalizeByNTCLoess.R R/GeneratePRC.R R/GenerateROC.R R/GCbias.R R/processFit.R R/ViewControls.R R/generateReports.R R/NormalizeBySlope.R R/gCrisprTools.R R/GREATdb.R vignettes/gCrisprTools_Vignette.Rmd vignettes/Crispr_example_workflow.Rmd man/ct.buildSE.Rd man/ct.inputCheck.Rd man/ct.makeRhoNull.Rd man/ct.preprocessFit.Rd man/ct.viewGuides.Rd man/ct.makeContrastReport.Rd man/ct.normalizeBySlope.Rd man/ct.PRC.Rd man/ct.CAT.Rd man/ct.DirectionalTests.Rd man/fit.Rd man/ct.stackGuides.Rd man/ct.guideCDF.Rd man/resultsDF.Rd man/ct.drawColorLegend.Rd man/ct.normalizeNTC.Rd man/ct.topTargets.Rd man/ct.GCbias.Rd man/ct.makeReport.Rd man/initOutDir.Rd man/ct.RRAaPvals.Rd man/renderReport.Rd man/aln.Rd man/ct.filterReads.Rd man/ct.rawCountDensities.Rd man/ct.gRNARankByReplicate.Rd man/ct.alphaBeta.Rd man/ct.ecdf.Rd man/ct.normalizeSpline.Rd man/ct.drawFlat.Rd man/es.Rd man/ct.getPanther.Rd man/ct.resultCheck.Rd man/ct.RRAalphaBatch.Rd man/ct.RRAalpha.Rd man/ct.prepareAnnotation.Rd man/ct.ROC.Rd man/ct.PantherPathwayEnrichment.Rd man/gCrisprTools-package.Rd man/ct.normalizeFactoredQuantiles.Rd man/ct.normalizeMedians.Rd man/ct.numcores.Rd man/ann.Rd man/essential.genes.Rd man/ct.signalSummary.Rd man/ct.generateResults.Rd man/ct.alignmentChart.Rd man/dir.writable.Rd man/ct.normalizeGuides.Rd man/ct.GREATdb.Rd man/ct.makeQCReport.Rd man/ct.viewControls.Rd man/ct.normalizeFQ.Rd man/ct.exprsColor.Rd man/ct.applyAlpha.Rd man/ct.targetSetEnrichment.Rd man/appendDateAndExt.Rd man/ct.multiGSEA.Rd tests/unit.tests.R inst/Mageck_&_gCrisprTools.pdf inst/doc/gCrisprTools_Vignette.Rmd inst/doc/gCrisprTools_Vignette.R inst/doc/Crispr_example_workflow.R inst/doc/Crispr_example_workflow.Rmd inst/rmarkdown/templates/CRISPR_contrast_report/skeleton/skeleton.Rmd inst/rmarkdown/templates/CRISPR_report/skeleton/skeleton.Rmd inst/rmarkdown/templates/CRISPR_QC_report/skeleton/skeleton.Rmd inst/unitTests/test.GenePvalsFromEset.R inst/unitTests/test.RRAalpha.R inst/unitTests/test.roc.R