Access normalized matrix (avoid name clash with generics)
Examples
data(Snail1KO)
counts <- as.matrix(Snail1KO$rawCounts)
counts <- counts[rowSums(counts >= 10) >= 3, ]
meta <- Snail1KO$metadata
rownames(meta) <- meta$Sample
norm <- log2(t(t(counts) / colSums(counts)) * 1e6 + 1)
obj <- GenEDA(normalized = norm, metadata = meta, counts = counts)
getNormalized(obj)[1:5, ]
#> ERR1736465 ERR1736466 ERR1736467 ERR1736468 ERR1736469 ERR1736470
#> TSPAN6 5.415755 5.665022 5.460769 5.333055 5.199030 5.055138
#> DPM1 7.731409 7.704980 7.718792 7.748248 7.834540 7.730443
#> SCYL3 2.412098 2.411402 2.320429 2.808374 2.396647 2.567561
#> C1orf112 4.988122 5.107658 4.967316 4.756930 4.903670 4.544546
#> FUCA2 7.583921 7.533377 7.693868 7.530859 7.599535 7.432394