… This process is known as repeat resolution (RR). SPAdes does not save its post-RR
assembly (contigs.fasta) in graph form, but it does save the graph paths used to make post-RR …

… .com/rrwick/Bandage . Bandage is implemented in C++ and supported on Linux, OS X and
Windows. A full feature list and screenshots are available at http://rrwick.github.io/Bandage . …

Klebsiella pneumoniae is a leading cause of antimicrobial-resistant (AMR) healthcare-associated
infections, neonatal sepsis and community-acquired liver abscess, and is associated …

… In July 2018, Ryan Wick attended a hackathon in Bermuda at ONT’s expense. ONT also
paid his travel, accommodation and registration to attend the London Calling (2017) and …

… can be found at github.com/rrwick/Polypolish. All supplementary figures, tables, methods
and scripts can be found on a GitHub repository at github.com/rrwick/Polypolish-paper (doi: …

Illumina sequencing platforms have enabled widespread bacterial whole genome sequencing.
While Illumina data is appropriate for many analyses, its short read length limits its ability …

While long-read sequencing allows for the complete assembly of bacterial genomes, long-read
assemblies contain a variety of errors. Here, we present Trycycler, a tool which produces …

Klebsiella pneumoniae is a growing cause of healthcare-associated infections for which
multi-drug resistance is a concern. Its polysaccharide capsule is a major virulence determinant …

Background. Klebsiella pneumoniae is an opportunistic pathogen and leading cause of
hospital-associated infections. Intensive care unit (ICU) patients are particularly at risk. …

… We also discuss potential pitfalls one might encounter when assembling challenging
genomes, and we provide an online tutorial with sample data ( github.com/rrwick/perfect-bacterial-…