Files in jrthompson54/DGE.Tools2

A function library to facilitate Differential Gene Expression Analysis

R/DGE_Tools.R R/OmicsoftToDgeObj.R R/QCplots.R R/ThemePack.R R/cdfPlot.R R/checkSex.R R/comparePlot.R R/convertCounts.R R/df_to_excel.R R/extractCol.R R/ggplotMDS.R R/graphDGEobj.R R/isoformFrac.R R/logRatioPlot.R R/lowIntFilter.R R/obsPlot.R R/obsPlot2.R R/plotDisp.R R/plotNorm.R R/plotPValHist.R R/printAndSave.R R/profilePlot.R R/rctutils.R R/rsq_calc.R R/runContrasts.R R/runEdgeRNorm.R R/runIHW.R R/runPower.R R/runQvalue.R R/runSVA.R R/runVoom.R R/summarizeSigCounts.R R/tidyContrasts.R R/tidyIntensity.R R/topTable.merge.R R/volcanoPlot.R R/voomWorkflow.R WorkFlowScript.R man/MDS_var_explained.Rd man/NoLegend.Rd man/NoXGrid.Rd man/NoXlab.Rd man/NoYGrid.Rd man/NoYlab.Rd man/OmicsoftToDgeObj.Rd man/QCplots.Rd man/addFootnote.Rd man/add_numbered_colnames.Rd man/baseFont.Rd man/baseTheme.Rd man/cdfPlot.Rd man/checkSex.Rd man/comparePlot.Rd man/comparePrep.Rd man/convertCounts.Rd man/df_to_excel.Rd man/dflist_to_excel.Rd man/dot-extractCol1.Rd man/dot-extractCol2.Rd man/eBayes_autoprop.Rd man/extractCol.Rd man/facetTheme.Rd man/getXrange.Rd man/getYrange.Rd man/get_mds.Rd man/ggplotMDS.Rd man/isoformFrac.Rd man/logRatioPlot.Rd man/lowIntFilter.Rd man/mapDGEobj.Rd man/obsPlot.Rd man/obsPlot2.Rd man/plotDisp.Rd man/plotNorm.Rd man/plotPvalHist.Rd man/printAndSave.Rd man/printWithFootnote.Rd man/profilePlot.Rd man/rsq_calc.Rd man/runContrasts.Rd man/runEdgeRNorm.Rd man/runIHW.Rd man/runPower.Rd man/runQvalue.Rd man/runSVA.Rd man/runVoom.Rd man/setLegendPosition.Rd man/summarizeSigCounts.Rd man/tidyContrasts.Rd man/tidyIntensity.Rd man/topTable.merge.Rd man/tpm.direct.Rd man/tpm.on.subset.Rd man/volcanoPlot.Rd man/voomWorkflow.Rd man/xrange.Rd man/yrange.Rd readme.md test/DGE.Tools2Testing.R test/SarahDgeobjTest.R test/buildAndInstall.R test/debug_tpm.R test/isoformFracTest.R test/runContrastTest.R test/runVoomTest.R test/testConvertCounts.R test/testConvertCountsWithVector.R test/test_MDS_var_explained.R test/test_QCplots.R test/test_comparePrep.R test/test_ggplotMDS_contColor.R test/test_logRatioPlot.R test/test_lowIntFilter.R test/test_mapDGEobj.R test/test_mapDGEobj2.R test/test_missingDataHeatmap.R test/test_obsPlot.R test/test_resetDGEobj.R test/test_textToDGEobj.R test/test_tidyIntensity_obsPlot2.R test/test_tpm.R test/test_voomWorkflow.R test/topTable.Merge.test.R test/training.R vignettes/DGE.Tools2_Manual.Rmd vignettes/DGE.Tools2_NewWorkflow.Rmd vignettes/DGE.Tools2_Workflow.Rmd vignettes/DGE.Tools2_Workflow.pdf vignettes/DGE.ToolsPlotGallery.Rmd vignettes/DGE.ToolsPlotGallery.pdf vignettes/renderVignettes.R vignettes/test_vignette.Rmd