Plassembler: an automated bacterial plasmid assembly tool.

ABSTRACT:

Summary

With recent advances in sequencing technologies, it is now possible to obtain near-perfect complete bacterial chromosome assemblies cheaply and efficiently by combining a long-read-first assembly approach with short-read polishing. However, existing methods for assembling bacterial plasmids from long-read-first assemblies often misassemble or even miss bacterial plasmids entirely and accordingly require manual curation. Plassembler was developed to provide a tool that automatically assembles and outputs bacterial plasmids using a hybrid assembly approach. It achieves increased accuracy and computational efficiency compared to the existing gold standard tool Unicycler by removing chromosomal reads from the input read sets using a mapping approach.

Availability and impleme

SUBMITTER: Bouras G 

PROVIDER: S-EPMC10326302 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature