Benchmarking long-read assembly tools and preprocessing strategies for bacterial genomes: A case study on <i>E. coli</i> DH5α.

ABSTRACT: Genome assembly is a crucial step in microbial genomics, significantly impacting downstream applications such as functional annotation and comparative genomics. While long-read sequencing technologies have improved genome reconstruction, the choice of assembler and preprocessing methods substantially influences assembly quality. Genome assembly is a crucial step in microbial genomics, significantly impacting downstream applications such as functional annotation and comparative genomics. While long-read sequencing technologies have improved genome reconstruction, the choice of assembler and preprocessing methods substantially influences assembly quality. Here, we benchmarked eleven long-read assemblers-Canu, Flye, HINGE, Miniasm, NECAT, NextDenovo, Raven, Shasta, SmartDenovo, wtdbg2 (Redbea

SUBMITTER: Kumar MS 

PROVIDER: S-EPMC12549375 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature