tests/medianPolish.matrix.R

In HenrikBengtsson/aroma.light-BioC_release: Light-Weight Methods for Normalization and Visualization of Microarray Data using Only Basic R Data Types

library("aroma.light")

# Deaths from sport parachuting;  from ABC of EDA, p.224:
deaths <- matrix(c(14,15,14, 7,4,7, 8,2,10, 15,9,10, 0,2,0), ncol=3, byrow=TRUE)
rownames(deaths) <- c("1-24", "25-74", "75-199", "200++", "NA")
colnames(deaths) <- 1973:1975

print(deaths)

mp <- medianPolish(deaths)
mp1 <- medpolish(deaths, trace=FALSE)
print(mp)

ff <- c("overall", "row", "col", "residuals")
stopifnot(all.equal(mp[ff], mp1[ff]))

# Validate decomposition:
stopifnot(all.equal(deaths, mp$overall+outer(mp$row,mp$col,"+")+mp$resid))