Biometry & Bioinformatics
Contact: Dr Olena Kravchuk
Biometry research involves development and application of statistical and computational methods for the design and analysis of comparative biological experiments. Within the School of Agriculture, Food & Wine our group has a broad research agenda. This includes research in advanced experimental design and statistical modelling of comparative experiments conducted in controlled and field environments. We also have a strong focus on statistical genetics research including linkage map construction, whole genome QTL analysis and genome wide association studies (GWAS). As an extension of this research we are additionally focusing on the computational aspects of digital agriculture including machine learning algorithms, high performance computing as well as user friendly online and mobile applications.
Related research centres and facilities
- Bioinformatics Hub
- Australian Plant Phenomics Facility & The Plant Accelerator®
- South Australian Research and Development Institute (SARDI)
- Animal Reproduction and Genetics team
- Dr Chris Brien – experimental design and statistical modelling for plant phenomics
- Dr Beverley Gogel – experimental design and statistical modelling for multi-environment multi-trait field trials; core member of the ASReml linear mixed modelling development team
- Dr Olena Kravchuk – non-parametric inference; sampling methodology; sensometrics
- Dr Helena Oakey - experimental design and statistical modelling; applied statistical genetics including whole genome QTL analysis and GWAS
- Dr Julian Taylor – advanced statistical modelling; computational statistics; R package development; statistical genetics including linkage map construction, whole genome QTL analysis and GWAS
- Dr Andy Timmins - high performance computing; machine learning; bioinformatics pipelines
Dr Richard Jarrett, A/Prof Ari Verbyla, Renata Alcarde Sermarnini; Dili Mao; Fabio Arsego, Emi Tanako and Ray Correll
- Training Courses
Current training courses run by the Biometry Hub include:
- Introduction to R Workshop - 30th April
- Introduction to Experimental Design Workshop - 1 May
- Statistical Analysis of Agronomic Experiments - 2&3 May
Upcoming workshop dates (subject to change):
- 2nd - 5th July
- 10th - 13th September
- 19th - 22nd November
- Additionally, July (TBC) - Regional SA session for GRDC grower groups
- AC21 project on the theory and practice of field sampling
The Academic Consortium for the 21st Century (AC21) has granted The Biometry Hub at Waite a $10,000 USD grant for 2018-19 to initiate a collaboration in the theory and practice of field sampling with the National University of Laos (Prof Silinthone Sacklokham) and the University of Canterbury, NZ (Prof Jennifer Brown).
Dr Olena Kravchuk, the University of Adelaide, is leading the project. The project is titled Promoting the uptake of the modern sampling theory in agriculture research and extension applications, and has a training and theory components.
In October- December, 2018, three workshops on field sampling for agricultural researchers will be presented in Australia, Laos and New Zealand. Additionally, in September-October, 2018 an international symposium on recent developments in the theory of ranked set sampling will be hosted in Adelaide.
If you have a project with a member of the AC21, (http://www.ac21.org/english/about/members/members), you may directly benefit from the training and research opportunities the current project presents. Enquires on the project are to be directed to Mr Peter Kasprzak, firstname.lastname@example.org.
- Ranked Set Sampling: translating the theory to applications in agriculture and natural sciences
Symposium, 27 – 28 September, 2018
Waite Campus, University of Adelaide, Adelaide, South Australia
The Ranked Set Sampling Symposium is bringing together theoretical and applied statisticians and practitioners interested in promoting and enabling the uptake of new statistical methods in agriculture and environmental field research and computations. The discussion will be focused on identifying best ways for adopting the ranked set sampling (RSS) methodology by the natural resources industries and research organizations.
Collecting field data in a representative way by marrying the ideas of random sampling and judgement order was suggested as a field sampling method by G.A. McIntyre in 1952 in his paper in the Australian Journal of Agricultural Research. The theory of RSS has expanded tremendously since the 1960’s, presenting nowadays various generalizations of the method as well as narrow specializations for numerous distributional assumptions and design constraints. The RSS method has the true potential to substantially increase the accuracy and efficiency of estimation of population moments and quantiles in the natural science field work as well as in computational experiments with complex “big” data.
In the Symposium, reflecting on the work and life of G.A. McIntyre, we will share ideas on how to encourage the adoption of RSS in agriculture and environmental sampling and on what can be done to make this valuable theoretical resource more accessible to practitioners, including applications in precision agriculture and remote sensing.
September-October is a spring time in Adelaide - fresh and crisp air and blue sky, with the temperature at the historical 18 – 20 degrees C. The Symposium is hosted by the Waite Campus of the University of Adelaide. The Waite is a world-known plant science research center. The Waite strengths are in the grains, soil and wine research, and we will endeavor to demonstrate the ranked set sampling techniques in glasshouses and vineyards on the campus.
The Symposium is currently sponsored by the Academic Consortium for the 21st Century (AC21), the University of Adelaide, and the University of Canterbury, NZ.
Abstract submission and registration are soon to be open. For more information please contact Olena Kravchuk directly at email@example.com or +61 8 83137252.
Organizing committee: Dr Olena Kravchuk, Dr Ray Correll, Peter Kasprzak (The University of Adelaide, Australia) and Prof Jennifer Brown (The University of Canterbury, NZ)
Contact: Dr Ute Baumann
Bioinformatics can include computational biology, data analysis, mathematical modelling, informatics, software development and systems biology. Our research touches on most of these areas, with a particular emphasis on the study of gene expression, gene regulation, genome structure, next generation sequencing and comparative genomics in crop species such as wheat and barley.