poreTally: run and publish de novo nanopore assembler benchmarks

Carlos de Lannoy*, J.E. Risse, D. de Ridder

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

1 Citation (Scopus)


Summary: Nanopore sequencing is a novel development in nucleic acid analysis. As such, nanopore-sequencing hardware and software are updated frequently and extensively, which quickly renders peer-reviewed publications on analysis pipeline benchmarking efforts outdated. To provide the user community with a faster, more flexible alternative to peer-reviewed benchmark papers for
de novo assembly tool performance we constructed poreTally, a comprehensive
benchmarking tool. poreTally automatically assembles a given read set using several often-used assembly pipelines, analyzes the resulting assemblies for correctness and continuity, and finally generates a quality report, which can immediately be published on Github/Gitlab.
Availability and implementation: poreTally is available on Github at https://github.com/cvdelannoy/poreTally, under an MIT license.
Original languageEnglish
Pages (from-to)2663-2664
Number of pages2
Issue number15
Early online date24 Dec 2018
Publication statusPublished - 1 Aug 2019


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