NtJoin: Fast and lightweight assembly-guided scaffolding using minimizer graphs.

ABSTRACT:

Summary

The ability to generate high-quality genome sequences is cornerstone to modern biological research. Even with recent advancements in sequencing technologies, many genome assemblies are still not achieving reference-grade. Here, we introduce ntJoin, a tool that leverages structural synteny between a draft assembly and reference sequence(s) to contiguate and correct the former with respect to the latter. Instead of alignments, ntJoin uses a lightweight mapping approach based on a graph data structure generated from ordered minimizer sketches. The tool can be used in a variety of different applications, including improving a draft assembly with a reference-grade genome, a short-read assembly with a draft long-read assembly and a draft assembly with an assembly from a closely r

SUBMITTER: Coombe L 

PROVIDER: S-EPMC7320612 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature