Display options
Cite
Hadfield J, Croucher NJ, Goater RJ, et al. Phandango: an interactive viewer for bacterial population genomics. Bioinformatics. 2018;34(2):292-293doi: 10.1093/bioinformatics/btx610.
Hadfield, J., Croucher, N. J., Goater, R. J., Abudahab, K., Aanensen, D. M., & Harris, S. R. (2018). Phandango: an interactive viewer for bacterial population genomics. Bioinformatics (Oxford, England), 34(2), 292-293. https://doi.org/10.1093/bioinformatics/btx610
Hadfield, James, et al. "Phandango: an interactive viewer for bacterial population genomics." Bioinformatics (Oxford, England) vol. 34,2 (2018): 292-293. doi: https://doi.org/10.1093/bioinformatics/btx610
Hadfield J, Croucher NJ, Goater RJ, Abudahab K, Aanensen DM, Harris SR. Phandango: an interactive viewer for bacterial population genomics. Bioinformatics. 2018 Jan 15;34(2):292-293. doi: 10.1093/bioinformatics/btx610. PMID: 29028899; PMCID: PMC5860215.
Copy Download .nbib Format: NLM
Share it on

Bioinformatics. 2018 Jan 15;34(2):292-293. doi: 10.1093/bioinformatics/btx610.

Phandango: an interactive viewer for bacterial population genomics.

Bioinformatics (Oxford, England)

James Hadfield, Nicholas J Croucher, Richard J Goater, Khalil Abudahab, David M Aanensen, Simon R Harris

Affiliations

  1. Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, UK.
  2. Department of Infectious Disease Epidemiology, Imperial College London, London, UK.
  3. Centre for Genomic Pathogen Surveillance, Wellcome Trust Genome Campus, Cambridge, UK.

PMID: 29028899 PMCID: PMC5860215 DOI: 10.1093/bioinformatics/btx610

Abstract

SUMMARY: Fully exploiting the wealth of data in current bacterial population genomics datasets requires synthesizing and integrating different types of analysis across millions of base pairs in hundreds or thousands of isolates. Current approaches often use static representations of phylogenetic, epidemiological, statistical and evolutionary analysis results that are difficult to relate to one another. Phandango is an interactive application running in a web browser allowing fast exploration of large-scale population genomics datasets combining the output from multiple genomic analysis methods in an intuitive and interactive manner.

AVAILABILITY AND IMPLEMENTATION: Phandango is a web application freely available for use at www.phandango.net and includes a diverse collection of datasets as examples. Source code together with a detailed wiki page is available on GitHub at https://github.com/jameshadfield/phandango.

© The Author 2017. Published by Oxford University Press.

References

  1. Bioinformatics. 2015 Nov 15;31(22):3691-3 - PubMed
  2. Microb Genom. 2016 Nov 30;2(11):e000093 - PubMed
  3. Nat Commun. 2016 Sep 16;7:12797 - PubMed
  4. Am J Hum Genet. 2007 Sep;81(3):559-75 - PubMed
  5. PLoS Genet. 2014 Aug 07;10(8):e1004547 - PubMed
  6. Nucleic Acids Res. 2012 Jan;40(1):e6 - PubMed
  7. Science. 2011 Jan 28;331(6016):430-4 - PubMed
  8. Nucleic Acids Res. 2015 Feb 18;43(3):e15 - PubMed

Publication Types

Grant support