Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 545923
Title poreTally: run and publish de novo nanopore assembler benchmarks
Author(s) Lannoy, Carlos de; Risse, J.E.; Ridder, D. de
Source Bioinformatics 35 (2019)15. - ISSN 1367-4803 - p. 2663 - 2664.
DOI https://doi.org/10.1093/bioinformatics/bty1045
Department(s) Bioinformatics
Publication type Refereed Article in a scientific journal
Publication year 2019
Abstract 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frequently and extensively, which quickly renders peer-reviewed publications on analysis pipeline benchmarking efforts outdated.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.
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