annotLODR: Annotate signal-abundance and ratio-abundance plots with LODR

In usnistgov/erccdashboard_preBioC: Assess Differential Gene Expression Experiments with ERCC Controls

Description

Annotate signal-abundance and ratio-abundance plots with LODR

Usage

annotLODR(exDat)

Arguments

exDat

list, contains input data and stores analysis results

Examples

data(SEQC.Example)

exDat <- initDat(datType="array", isNorm=FALSE,
                 exTable=UHRR.HBRR.arrayDat,
                 filenameRoot="testRun", sample1Name="UHRR",
                 sample2Name="HBRR", erccmix="RatioPair",
                 erccdilution = 1, spikeVol = 50,
                 totalRNAmass = 2.5*10^(3), choseFDR=0.01)

exDat <- est_r_m(exDat)

exDat <- dynRangePlot(exDat)

exDat <- geneExprTest(exDat)

exDat <- estLODR(exDat, kind="ERCC", prob=0.9)

exDat <- annotLODR(exDat)

exDat$Figures$maPlot

usnistgov/erccdashboard_preBioC documentation built on May 3, 2019, 2:38 p.m.