<![CDATA[BOL: NextDenovo: string graph-based de novo assembler for TGS long reads]]> https://bioinformaticsonline.com/bookmarks/view/40516/nextdenovo-string-graph-based-de-novo-assembler-for-tgs-long-reads? https://bioinformaticsonline.com/bookmarks/view/40516/nextdenovo-string-graph-based-de-novo-assembler-for-tgs-long-reads Sun, 05 Jan 2020 04:08:29 -0600 https://bioinformaticsonline.com/bookmarks/view/40516/nextdenovo-string-graph-based-de-novo-assembler-for-tgs-long-reads <![CDATA[NextDenovo: string graph-based de novo assembler for TGS long reads]]> NextDenovo is a string graph-based de novo assembler for TGS long reads. It uses a "correct-then-assemble" strategy similar to canu, but requires significantly less computing resources and storages. After assembly, the per-base error rate is about 97-98%, to further improve single base accuracy, please use NextPolish.

NextDenovo contains two core modules: NextCorrect and NextGraph. NextCorrect can be used to correct TGS long reads with approximately 15% sequencing errors, and NextGraph can be used to construct a string graph with corrected reads. It also contains a modified version of minimap2 for adapting input and output and producing more sensitive and accurate dovetail overlaps, and some useful utilities (see here for more details).

Address of the bookmark: https://github.com/Nextomics/NextDenovo

]]> Jit