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Dorottya Nagy

@dotnagy.bsky.social

Bioinformatician, Infectious Disease Epidemiologist, Veterinary Surgeon

Dorottya Nagy @dotnagy.bsky.social · 30/09/2025

🧪 ♻️ Want to make lab and computational research more sustainable? Check out our Oxford Climate Society blog post: oxfordclimatesociety.com/blog/from-pi... Shout out to Green Team colleagues @modmedmicro.bsky.social for helping! #LEAFAward #GreenDiSC #GreenImpact #SustainableScience

Photo of the Modernising Medical Microbiology Green Team wearing protective clothing, helmets, and safety goggles at the Ardley Energy Recovery Centre during their field trip to see first hand how Oxfordshire waste is burned, instead of ending up in landfill, to generate electricity.

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Dorottya Nagy @dotnagy.bsky.social · 29/09/2025

To summarise our recent pre-print: Autocycler, the automated consensus assembler, when used with Nanopore long-read only Enterobacterales assemblies, produces more complete chromosomes and plasmids, with an accuracy comparable to hybrid assemblies.

Figure 2 from my recently pre-printed manuscript on the completeness and accuracy of Nanopore long-read only bacterial genome assembly for Enterobacterales. a) tile plot of chromosome circularisation, with assembler on the x-axis and sample on the y-axis, shows that the consensus long-read only assembler, Autocycler, circularised more chromosomes at 95% (87/92) than any other long-read or hybrid assembler. b) complex upset plot of plasmid reconstruction, showing that the best plasmid reconstruction was achieved by long-read assemblers incorporating the separate plasmid assembly tool, Plassembler, namely Autocycler and Hybracter, reconstructing >96% of plasmids.

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