Figure 5.

Tuning SOAPdenovo k-mer parameter using LAP. LAP, N50, and corrected N50 are plotted for various SOAPdenovo assemblies of E. coli K12 MG1655 dataset for different k-mer sizes (k = 23-123). ALE [27] scores are plotted alongside the LAP to show the differences between their underlying likelihood models. Also included is a breakdown of the errors along with the percentage of the unaligned reads for the various SOAPdenovo assemblies. Two vertical lines (at k = 79 and k = 87) correspond to the maximum ALE and LAP score, respectively.