Augur: a bioinformatics toolkit for phylogenetic analyses of human pathogens

Huddleston, John and Hadfield, James and Sibley, Thomas R. and Lee, Jover and Fay, Kairsten and Ilcisin, Misja and Harkins, Elias and Bedford, Trevor and Neher, Richard A. and Hodcroft, Emma B.. (2021) Augur: a bioinformatics toolkit for phylogenetic analyses of human pathogens. Journal of Open Source Software, 6 (57). p. 4.

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Official URL: https://edoc.unibas.ch/84943/

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The analysis of human pathogens requires a diverse collection of bioinformatics tools. These tools include standard genomic and phylogenetic software and custom software developed to handle the relatively numerous and short genomes of viruses and bacteria. Researchers increasingly depend on the outputs of these tools to infer transmission dynamics of human diseases and make actionable recommendations to public health officials (Black et al., 2020; Gardy et al., 2015). In order to enable real-time analyses of pathogen evolution, bioinformatics tools must scale rapidly with the number of samples and be flexible enough to adapt to a variety of questions and organisms. To meet these needs, we developed Augur, a bioinformatics toolkit designed for phylogenetic analyses of human pathogens.
Faculties and Departments:05 Faculty of Science > Departement Biozentrum > Computational & Systems Biology > Computational Modeling of Biological Processes (Neher)
UniBasel Contributors:Neher, Richard A
Item Type:Article, refereed
Article Subtype:Research Article
Note:Publication type according to Uni Basel Research Database: Journal article
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Last Modified:24 Feb 2022 11:34
Deposited On:24 Feb 2022 11:34

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