Martin Hunt
European Bioinformatics Institute
58 Papers
314 Citations
Martin Hunt is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: Genome & Biology. The author has an hindex of 26, co-authored 47 publications. Previous affiliations of Martin Hunt include Wellcome Trust Sanger Institute & University of Oxford.
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Papers
Roary: Rapid large-scale prokaryote pan genome analysis
Andrew J. Page,Carla A. Cummins,Martin Hunt,Vanessa K. Wong,Sandra Reuter,Matthew T. G. Holden,Maria Fookes,Daniel Falush,Jacqueline A. Keane,Julian Parkhill +9 more
TL;DR: Roary, a tool that rapidly builds large-scale pan genomes, identifying the core and accessory genes, is introduced, making construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results.
Roary: Rapid large-scale prokaryote pan genome analysis
Andrew J. Page,Carla A. Cummins,Martin Hunt,Vanessa K. Wong,Sandra Reuter,Matthew T. G. Holden,Maria Fookes,Jacqueline A. Keane,Julian Parkhill +8 more
TL;DR: Roary is introduced, a tool that rapidly builds large-scale pan genomes, identifying the core and dispensable accessory genes and making construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results.
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Circlator: automated circularization of genome assemblies using long sequencing reads
Martin Hunt,Nishadi De Silva,Thomas D. Otto,Julian Parkhill,Jacqueline A. Keane,Simon R. Harris +5 more
TL;DR: Circlator, the first tool to automate assembly circularization and produce accurate linear representations of circular sequences, correctly circularized 26 of 27 circularizable sequences.
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
Keith Bradnam,Joseph Fass,Anton Alexandrov,Paul Baranay,Michael Bechner,Inanc Birol,Sébastien Boisvert,Jarrod Chapman,Guillaume Chapuis,Guillaume Chapuis,Rayan Chikhi,Rayan Chikhi,Hamidreza Chitsaz,Wen-Chi Chou,Jacques Corbeil,Cristian Del Fabbro,Roderick R. Docking,Richard Durbin,Dent Earl,Scott J. Emrich,Pavel Fedotov,Nuno A. Fonseca,Ganeshkumar Ganapathy,Richard A. Gibbs,Sante Gnerre,Elenie Godzaridis,Steve Goldstein,Matthias Haimel,Giles Hall,David Haussler,Joseph B. Hiatt,Isaac Ho,Jason T. Howard,Martin Hunt,Shaun D. Jackman,David B. Jaffe,Erich D. Jarvis,Huaiyang Jiang,Sergey Kazakov,Paul J. Kersey,Jacob O. Kitzman,James R. Knight,Sergey Koren,Tak-Wah Lam,Dominique Lavenier,Dominique Lavenier,Dominique Lavenier,François Laviolette,Yingrui Li,Zhenyu Li,Binghang Liu,Yue Liu,Ruibang Luo,Iain MacCallum,Matthew D. MacManes,Nicolas Maillet,Nicolas Maillet,Sergey Melnikov,Delphine Naquin,Delphine Naquin,Zemin Ning,Thomas D. Otto,Benedict Paten,Octávio S. Paulo,Adam M. Phillippy,Francisco Pina-Martins,Michael Place,Dariusz Przybylski,Xiang Qin,Carson Qu,Filipe J. Ribeiro,Stephen Richards,Daniel S. Rokhsar,Daniel S. Rokhsar,J. Graham Ruby,J. Graham Ruby,Simone Scalabrin,Michael C. Schatz,David C. Schwartz,Alexey Sergushichev,Ted Sharpe,Timothy I. Shaw,Jay Shendure,Yujian Shi,Jared T. Simpson,Henry Song,Fedor Tsarev,Francesco Vezzi,Riccardo Vicedomini,Bruno Vieira,Jun Wang,Kim C. Worley,Shuangye Yin,Siu-Ming Yiu,Jianying Yuan,Guojie Zhang,Hao Zhang,Shiguo Zhou,Ian F Korf +98 more
TL;DR: The Assemblathon 2 as discussed by the authors presented a variety of sequence data to be assembled for three vertebrate species (a bird, a fish, and a snake) from 21 participating teams.
ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads
Martin Hunt,Alison E. Mather,Alison E. Mather,Leonor Sánchez-Busó,Andrew J. Page,Julian Parkhill,Jacqueline A. Keane,Simon R. Harris +7 more
- 04 Sep 2017
TL;DR: A new tool is presented, ARIBA, that identifies AMR-associated genes and single nucleotide polymorphisms directly from short reads, and generates detailed and customizable output.