Accuracy comparison for predicted H3K36me3 ERs. (a,b) F-measure versus RPKM threshold for H3K36me3 ERs for GM12878 (a) and K562 (b) cell lines. (c,d) The recovered promoter fraction versus correct peak fraction for H3K4me3 ERs for GM12878 (c) and K562 (d) cell lines with increasing peak rank. (e) The F-measure versus RPKM cutoff with (red) and without (blue) mappability correction. (f) The reproducibility of the H3K36me3 and H3K27me3 ERs. The average overlap fraction is shown on the y-axis. Average reproducibility for each method is computed as the average over all the fractions.