Supplementary Data Site

K-mer similarity, networks of microbial genomes and taxonomic rank

Guillaume Bernard1, Paul Greenfield2, Mark A. Ragan1 and Cheong Xin Chan1,3

1Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072, Australia
2CSIRO, North Ryde, NSW 2113, Australia
3School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD 4072, Australia


Dynamic Figure 2. P-network of 2705 prokaryote genomes based on whole-genome data. Network generated using D2S with k = 25 at t = 3. This figure correponds to Figure 2 of this paper. [View]

Dynamic Figure 3. P-network of 2616 prokaryote genomes based on chromosomal sequences with rRNA genes removed. Network generated using D2S with k = 25 at t = 3. This figure correponds to Figure 3 of this paper. [View]

Dynamic Figure 4. I-network of 921 plasmid genomes. Network generated using D2S with k = 25. Network at threshold t = 0 is shown in Figure 4 of this paper. [View]


All phylogenomic networks generated from this work are available for download at https://dx.doi.org/10.14264/uql.2017.436.

  • Please see this README page for the use of these downloaded files on your local computer.


  • Citation
    Bernard G, Greenfield P, Ragan MA and Chan CX (2018) K-mer similarity, networks of microbial genomes and taxonomic rank. mSystems, accepted 2 November 2018.

    Contact
    Cheong Xin Chan | c.chan1 [at] uq.edu.au