FIG. 1.

Two approaches to assembling highly polymorphic (HP) diploid genomes (two haplomes are shown on top as solid and dotted segments): conventional assemblers (black arrows) and dipSPAdes (green arrows). Conventional assemblers generate haplocontigs from both haplomes that are shown in red and blue (colors of haplocontigs are unknown in practice). dipSPAdes uses the de Bruijn graph to generate consensus contigs by combining and extending haplocontigs. Afterward, dipSPAdes restores allelic relations using alignment of haplocontigs to the consensus contigs.