UCL Discovery
UCL home » Library Services » Electronic resources » UCL Discovery

RCandy: an R package for visualizing homologous recombinations in bacterial genomes

Chaguza, Chrispin; Tonkin-Hill, Gerry; Lo, Stephanie W; Hadfield, James; Croucher, Nicholas J; Harris, Simon R; Bentley, Stephen D; (2022) RCandy: an R package for visualizing homologous recombinations in bacterial genomes. Bioinformatics , 38 (5) pp. 1450-1451. 10.1093/bioinformatics/btab814. Green open access

[thumbnail of Chaguza_Manuscript_1.pdf]
Preview
Text
Chaguza_Manuscript_1.pdf

Download (297kB) | Preview

Abstract

SUMMARY: Homologous recombination is an important evolutionary process in bacteria and other prokaryotes, which increases genomic sequence diversity and can facilitate adaptation. Several methods and tools have been developed to detect genomic regions recently affected by recombination. Exploration and visualization of such recombination events can reveal valuable biological insights, but it remains challenging. Here, we present RCandy, a platform-independent R package for rapid, simple and flexible visualization of recombination events in bacterial genomes. AVAILABILITY AND IMPLEMENTATION: RCandy is an R package freely available for use under the MIT license. It is platform-independent and has been tested on Windows, Linux and MacOSX. The source code comes together with a detailed vignette available on GitHub at https://github.com/ChrispinChaguza/RCandy. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Type: Article
Title: RCandy: an R package for visualizing homologous recombinations in bacterial genomes
Location: England
Open access status: An open access version is available from UCL Discovery
DOI: 10.1093/bioinformatics/btab814
Publisher version: https://doi.org/10.1093/bioinformatics/btab814
Language: English
Additional information: © The Author(s) 2021. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com This article is published and distributed under the terms of the Oxford University Press, Standard Journals Publication Model (https://academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model)
UCL classification: UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Medical Sciences > Div of Infection and Immunity
URI: https://discovery.ucl.ac.uk/id/eprint/10160999
Downloads since deposit
38Downloads
Download activity - last month
Download activity - last 12 months
Downloads by country - last 12 months

Archive Staff Only

View Item View Item