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. 2019 Nov 22;48(1):290–303. doi: 10.1093/nar/gkz1080

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© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 1. — DGRP379 nanopore genome assembly before and after Hi-C scaffolding. The top half of the figure shows the Hi-C contact matrices before and after scaffolding. Lighter shades indicate more 3D interactions between genomic regions and darker shades indicate fewer interactions. The red boxes show the location of contigs/scaffolds and red arrows point to off-diagonal interactions that are due to assembly errors in the contigs. The bottom half of the figure shows dotplots representing the alignment of the assembly to the D. melanogaster iso-1 reference genome before and after scaffolding. The red arrows point to the contig assembly errors.