About the Authors

Marcin J. Skwark

Contributed equally to this work with: Marcin J. Skwark, Nicholas J. Croucher

Affiliation Department of Chemistry, Vanderbilt University, Nashville, TN, United States of America

Nicholas J. Croucher

Contributed equally to this work with: Marcin J. Skwark, Nicholas J. Croucher

Affiliation Department of Infectious Disease Epidemiology, Imperial College London, London, United Kingdom

Santeri Puranen

Affiliation Department of Computer Science, Aalto University, Espoo, Finland

Claire Chewapreecha

Affiliation Department of Medicine, University of Cambridge, Cambridge, United Kingdom

Maiju Pesonen

Affiliation Department of Computer Science, Aalto University, Espoo, Finland

Ying Ying Xu

Affiliation Department of Computer Science, Aalto University, Espoo, Finland

Paul Turner

Affiliations Shoklo Malaria Research Unit, Mahidol-Oxford Tropical Medicine Research Unit, Faculty of Tropical Medicine, Mahidol University, Mae Sot, Thailand, Centre for Tropical Medicine, Nuffield Department of Medicine, University of Oxford, Oxford, United Kingdom

Simon R. Harris

Affiliation Pathogen Genomics, Wellcome Trust Sanger Institute, Cambridge, United Kingdom

Stephen B. Beres

Affiliation Center for Molecular and Translational Human Infectious Diseases Research, Department of Pathology and Genomic Medicine, Houston Methodist Research Institute, and Houston Methodist Hospital, Houston, Texas, United States of America

James M. Musser

Affiliations Center for Molecular and Translational Human Infectious Diseases Research, Department of Pathology and Genomic Medicine, Houston Methodist Research Institute, and Houston Methodist Hospital, Houston, Texas, United States of America, Departments of Pathology and Laboratory Medicine and Microbiology and Immunology, Weill Cornell Medical College, New York, New York, United States of America

Julian Parkhill

Affiliation Pathogen Genomics, Wellcome Trust Sanger Institute, Cambridge, United Kingdom

Stephen D. Bentley

Affiliation Pathogen Genomics, Wellcome Trust Sanger Institute, Cambridge, United Kingdom

Erik Aurell

jukka.corander@medisin.uio.no (JC); eaurell@kth.se (EA)

Affiliations Department of Computational Biology, KTH–Royal Institute of Technology, Stockholm, Sweden, Departments of Applied Physics and Computer Science, Aalto University, Espoo, Finland, Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing, China

Jukka Corander

jukka.corander@medisin.uio.no (JC); eaurell@kth.se (EA)

Affiliations Pathogen Genomics, Wellcome Trust Sanger Institute, Cambridge, United Kingdom, Department of Mathematics and Statistics, University of Helsinki, Helsinki, Finland, Department of Biostatistics, University of Oslo, Oslo, Norway, Department of Veterinary Medicine, University of Cambridge, Cambridge, United Kingdom

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceptualization: EA JC. Data curation: PT SRH JP SDB SBB JMM. Formal analysis: MJS NJC SP CC MP YYX EA JC. Funding acquisition: EA JC. Investigation: MJS NJC SP CC MP YYX. Methodology: MJS NJC SP CC MP YYX EA JC. Project administration: EA JC. Resources: PT SBB JMM. Supervision: EA JC. Validation: EA JC JP SDB SBB JMM. Visualization: MJS NJC SP CC MP YYX EA JC. Writing – original draft: MJS NJC SP JP EA JC. Writing – review & editing: CC PT SRH JP SDB SBB JMM.