Integrating Hi-C links with assembly graphs for chromosome-scale assembly
Fig 6
Chromosome ideogram generated using the coloredChromosomes [39] package.
Each color switch denotes a change in the aligned sequence, either due to large structural error or the end of a contig/scaffold. Left: input contigs aligned to the GRCh38 reference genome. Right: SALSA2 scaffolds aligned to the GRCh38 reference genome. More than ten chromosomes are in a single scaffold. Chromosomes 16 and 19 are more fragmented due to scaffolding errors that break the alignment.