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- Software type:
- Restrictions to use:
- Output format:
- EMBL, GFF3, VCF, CSV, FASTA, PHYLIP, TRE
- Programming languages:
- C, Python
- Computer skills:
- Source code URL:
- Command line interface
- Input data:
- A whole genome alignment with polymorphic sites.
- Operating system:
- GNU General Public License version 2.0
(Croucher et al., 2015) Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins. Nucleic Acids Res.
Pathogen Genomics, The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; Center for Communicable Disease Dynamics, Harvard School of Public Health, Boston, MA, USA; Department of Infectious Disease Epidemiology, Imperial College London, St. Mary’s Campus, London, UK; Cardiff School of Biosciences, Sir Martin Evans Building, Cardiff, UK; School of Computing, Engineering and Mathematics, University of Brighton, Brighton, UK; Department of Medicine, University of Cambridge, Addenbrooke’s Hospital, Cambridge, UK
This work was supported by Wellcome Trust .
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