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Viruses 2015, 7(2), 781-797; doi:10.3390/v7020781

Bioinformatics Tools for Small Genomes, Such as Hepatitis B Virus

Hepatitis Virus Diversity Research Programme (HVDRP), Department of Internal Medicine, School of Clinical Medicine, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg 2050, South Africa
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Author to whom correspondence should be addressed.
Academic Editor: Viktor Müller
Received: 11 November 2014 / Revised: 18 December 2014 / Accepted: 10 February 2015 / Published: 16 February 2015
(This article belongs to the Special Issue Bioinformatics and Computational Biology of Viruses)
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Abstract

DNA sequence analysis is undertaken in many biological research laboratories. The workflow consists of several steps involving the bioinformatic processing of biological data. We have developed a suite of web-based online bioinformatic tools to assist with processing, analysis and curation of DNA sequence data. Most of these tools are genome-agnostic, with two tools specifically designed for hepatitis B virus sequence data. Tools in the suite are able to process sequence data from Sanger sequencing, ultra-deep amplicon resequencing (pyrosequencing) and chromatograph (trace files), as appropriate. The tools are available online at no cost and are aimed at researchers without specialist technical computer knowledge.
The tools can be accessed at http://hvdr.bioinf.wits.ac.za/SmallGenomeTools, and the source code is available online at https://github.com/DrTrevorBell/SmallGenomeTools. View Full-Text
Keywords: sequence data; sequence fragments; chromatograms; DNA assembly; amplicons; indels; alignment; phylogenetics; GenBank sequence data; sequence fragments; chromatograms; DNA assembly; amplicons; indels; alignment; phylogenetics; GenBank
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Bell, T.G.; Kramvis, A. Bioinformatics Tools for Small Genomes, Such as Hepatitis B Virus. Viruses 2015, 7, 781-797.

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