Description Usage Arguments Details Examples
Estimate the mRNA fraction differences for the pair of samples using replicate data
1 | est_r_m(exDat)
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exDat |
list, contains input data and stores analysis results |
This is the first function to run after an exDat structure is initialized using initDat, because it is needed for all additional analysis. An r_m of 1 indicates that the two sample types under comparison have similar mRNA fractions of total RNA. The r_m estimate is used to adjusted the expected ERCC mixture ratios in this analysis and may indicate a need for a different sample normalization approach.
1 2 3 4 5 6 7 8 9 | data(SEQC.Example)
exDat <- initDat(datType="count", isNorm = FALSE, exTable=MET.CTL.countDat,
filenameRoot = "testRun",sample1Name = "MET",
sample2Name = "CTL", erccmix = "RatioPair",
erccdilution = 1/100, spikeVol = 1, totalRNAmass = 0.500,
choseFDR = 0.1)
exDat <- est_r_m(exDat)
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