Improving Bionano scaffolding with BiSCoT

Abstract Motivation Long reads sequencing and Bionano Genomics optical maps are two techniques that, when used together, make it possible to reconstruct entire chromosome or chromosome arms structure. However, the existing tools are often too conservative when two contigs are joined. Results We developed BiSCoT (Bionano SCaffolding COrrection Tool), a software that uses informations produced by a pre-existing assembly based on optical maps as input and improves the contiguity and the quality of the generated assembly. Availability BiSCoT is freely available at https://github.com/institut-de-genomique/biscot Contact bistace@genoscope.cns.fr;jmaury@genoscope.cns.fr