Figure 2
From: Automated ensemble assembly and validation of microbial genomes
Comparison of corrected and raw N50 contig sizes for all assemblies of R. sphaeroides . Corrected N50 sizes were computed using the GAGE metrics [7]. The dashed vertical line indicates the auto-selected k of 35 chosen by KmerGenie. The individual points indicate assemblies from GAGE-B. The auto-selected k-mer provides the best overall corrected N50 on this dataset. One notable exception is SPAdes, for which the auto-selected k produced an N50 13% lower than the best. This is likely caused by SPAdes use of multiple k-mers for assembly, something that KmerGenie does not currently take into account. In all other cases, except when GAGE-B used EA-UTILS [58] to trim the input sequences, the automatically selected k-mer outperforms the k-mer choice from GAGE-B.