LACHESIS is tool to scaffold contigs based on Hi-C reads, which provide short to long range linkage information. It utilizes the contact probabilities of Hi-C reads to order and orientate contigs. Using this tool, it is possible to generate chromosome-level scaffolds.
Sequence assembly
Burton JN, Adey A, Patwardhan RP, Qiu R, Kitzman JO, Shendure J "Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions." Nat Biotechnol. 2013 Dec;31(12):1119-25. https://doi.org/10.1038/nbt.2727
PMID: 24185095
PMCID: PMC4117202
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