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Richard Leggett - Project Leader

Richard is Project Leader in the Data Infrastructure & Algorithms Group. His research interests include:
  • Metagenomics – especially assembly algorithms.
  • Application of new sequencing technologies – such as the MinION.
  • Development of bioinformatics tools.
Richard currently holds a 3-year BBSRC grant looking at the development of assembly algorithms for metagenomics, particularly targeting viral communities. This work builds upon some initial proof-of-concept work developing the MetaCortex assembler.

He has been involved in the development of a number of bioinformatics tools, including:

Graduating in Physics, Richard spent 10 years working as a software engineer, before undertaking an MSc in Advanced Computing Science and a PhD in Computational Biology.  His PhD thesis was entitled, "Computational approaches for the analysis and modelling of filamentous growth and branching of Steptomyces coelicolor". Following the PhD, and prior to joining TGAC, Richard was a postdoc at The Sainsbury Laboratory, Norwich, looking at novel methods for SNP detection in reference-free organisms.


Contact details

Email: richard.leggett@tgac.ac.uk

Twitter: @richardmleggett

 

Recent publications

C.L.C. Ip et al. (2015). MinION Analysis and Reference Consortium: Phase 1 data release and analysis. F1000Research 4:1075 (doi: 10.12688/f1000research.7201.1).

R.M. Leggett, D. Heavens, M. Caccamo, M.D. Clark, R.P. Davey (2015). NanoOK: multi-reference alignment analysis of nanopore sequencing data, quality and error profiles. Bioinformatics doi:10.1093/bioinformatics/btv540.

G.M. Daly, R.M. Leggett, W. Rowe, S. Stubbs, M. Wilkinson, R.H. Ramirez-Gonzalez, M. Caccamo, W. Bernal, J.L. Heeney. (2015) Host Subtraction, Filtering and Assembly Validations for Novel Viral Discovery Using Next Generation Sequencing Data. PLoS ONE 10(6): e0129059. doi:10.1371/journal.pone.0129059.

R.M. Leggett, D. MacLean (2014). Reference-free SNP detection: dealing with the data deluge. BMC Genomics 15(Suppl 4):S10.

R.M. Leggett, B.J. Clavijo, L. Clissold, M.D. Clark, M. Caccamo (2014). NextClip: an analysis and read preparation tool for Nextera long mate pair libraries. Bioinformatics 30(4):566-568.

R.M. Leggett, R.H. Ramirez-Gonzalez, B.J. Clavijo, D. Waite, R.P. Davey (2013). Sequencing quality assessment tools to enable data-driven informatics for high throughput genomics. Frontiers in Genetics 4:288.

R. Ramirez-Gonzalez, R.M. Leggett, D. Waite, A. Thanki, N. Drou, M. Caccamo, R. Davey (2013). StatsDB: platform-agnostic storage and understanding of next generation sequencing run metrics [v1; ref status: indexed, http://f1000r.es/28e] F1000Research 2:248 (doi: 10.12688/f1000research.2-248.v1)

F. Jupe, K. Witek, W. Verweij, J. Sliwka, L. Pritchard, G.J. Etherington, D. Maclean, P.J. Cock, R.M. Leggett, G.J. Bryan, L. Milne, I. Hein, J.D.G. Jones (2013). Resistance gene enrichment sequencing (RenSeq) enables re-annotation of the NB-LRR gene family from sequenced plant genomes and rapid mapping of resistance loci in segregating populations. The Plant Journal 76(3):530-544.

K.S. Baker, R.M. Leggett, N.H. Bexfield, M. Alston, G. Daly, S. Todd, M. Tachedjian, C.E. Holmes, S. Crameri, L.F. Wang, J.L. Heeney, R. Suu-Ire, P. Kellam, A.A. Cunningham, J.L. Wood, M. Caccamo, P.R. Murcia (2013). Metagenomic study of the viruses of African straw-coloured fruit bats: Detection of a chiropteran poxvirus and isolation of a novel adenovirus. Virology, 441(2):95-106.

R.M. Leggett, R.H. Ramirez-Gonzalez, W. Verweij, C.G. Kawashima, Z. Iqbal, J.D.G. Jones, M. Caccamo, D. MacLean (2013). Identifying and classifying trait linked polymorphisms in non-reference species by walking coloured de Bruijn graphs. PLoS ONE 8(3): e60058. doi:10.1371/journal.pone.0060058.

N. Holmes, J. Walshaw, R.M. Leggett, A. Thibessard, K.A. Dalton, M.D. Gillespie, A.M. Hemmings, B. Gust, G.H. Kelemen (2013). Coiled-coil protein Scy is a key component of a multiprotein assembly controlling polarized growth in Streptomyces. PNAS 110(5):E397-E406.

M. Groenen et al. (2012). Analyses of pig genomes provide insight into porcine demography and evolution. Nature 491:393-398.

D. Earl et al. (2011). Assemblathon 1: A competitive assessment of de novo short read assembly methods. Genome Research, 21(12):2224–2241.

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