OMGS is a fast genome scaffolding tool which takes advantage of one or multiple Bionano optical maps to accurately generate scaffolds. Instead of alternatively using single optical maps, OMGS uses multiple optical maps at the same time and takes advantage of the redundance contained in multiple maps to generate the ”optimal” scaffolds which make the smartest tradeoff between contiguity and correctness. Extensive experimental results demonstrate that our tool can outperform existing method in terms of both correctness and contiguity on multiple Bionano optical maps, and it can also generate comparable or better scaffolds using single optical map. Until now, Novo&Stitch can only run on Unix/Linux systems.

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  1. Pan, Weihua; Jiang, Tao; Lonardi, Stefano: OMGS: optical map-based genome scaffolding (2019)