propdegenescalculation {a4Base} | R Documentation |
Estimation of proportion of differentially expressed genes. This estimation is based on a histogram of the p-values. More specifically, based on the horizontal line representing a uniform distribution based on the p value distribution between 0.5 and 1. This represents the hypothetical p value distribution arising just by chance. All genes with small p-values above this line reflect the expected number of differentially expressed genes not by chance.
propdegenescalculation(pValue)
pValue |
a vector of p-values |
proportion of differential genes
Willem Talloen and Tobias Verbeke
if (require(ALL)){ data(ALL, package = "ALL") ALL <- addGeneInfo(ALL) ALL$BTtype <- as.factor(substr(ALL$BT,0,1)) tTestResult <- tTest(ALL, "BTtype") histPvalue(tTestResult[,"p"], addLegend = TRUE) propDEgenesRes <- propDEgenes(tTestResult[,"p"]) }