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Plant Data Analytics and Statistical Support for Modern Breeding Pipelines
The H3 consulting group gives your organisation access to unparalleled knowledge and expertise across the plant sciences offering a modular, precision approach to pipelines, enhancing your program where it’s needed most.
Accelerating Plant Breeding Decisions with Expert Analysis & Software
H3 is our collaboration with Biometris (the commercial arm of Wageningen University) and the James Hutton Institute, bringing together three highly experienced and respected organisations in the field of plant breeding offering consulting and technical support for modular statistical genetics pipelines to enhance your plant breeding activities.
H3 offers selectable and componentized statistical genetic pipelines to help plant breeders make the next generation plant breeding decisions. We use the latest innovative statistics and methodologies to drive a new generation of plants to achieve your breeding goals. Our focus is on powerful and accurate plant data analytics with proven methodologies to identify the most promising plant genetics in the shortest time frame, all supported by world renowned practising statisticians, bioinformaticians and bioscientists.
Driving a new generation of plants with software and expertise
Watch the video to get to know H3 better
Plant Pipeline Modules Offered
The diagram (left) features the modules where we can offer our expertise. H3 can advise and implement strategies on any one of these areas or multiple modules depending on your objectives. The modularity of the pipeline allows easy adaptation to specific user requirements. We can also review your entire pipeline and then make recommendations on improvements in areas where required.
- A wide variety of experimental designs that allow precise estimation of genotypic effects and contrasts while correcting for noise factors.
- Exploration and quantification of genetic diversity and distances using sequence, molecular marker and phenotypic data. A preparation for later genotype-to-phenotype modelling.
- A powerful mixed model-based approach to identify quantitative trait loci (QTLs) for whichever kind of breeding population, mating type, ploidy level, number of traits and environments.
- Quantitative genetic analyses for all types of breeding populations that deliver estimates for important statistical genetic parameters such as repeatabilities, heritabilities, and genetic and environmental variances, covariances, and correlations.
- Decision support for selection of superior genotypes and crossing partners.
- A powerful map construction algorithm that efficiently produces genetic maps for biparental and multi-parental populations.
- Extensive suite of methods and visualizations to deal with the major problem in plant breeding and evolutionary biology: genotype by environment interaction.
- Data fusion and integration of high throughput genotyping, phenotyping, omics data and environmental characterization data.
- Visualization tools to support reporting and decision making.
Power Plant Breeding Decision Making
For plant breeders, new data generating techniques in the field of genotyping, phenotyping, omics data and envirotyping present new opportunities for increasing the efficiency of breeding programs.
H3 helps plant breeders use new statistical techniques and plant analysis software to support better breeding decisions by offering:
- Designed to allow smooth information exchange of data between the statistical algorithms, visualization tools, databases and applications.
- API provides a standard interface to access the tools and algorithms.
- Embeds new algorithms and methods for spatial analysis of field trials by two-dimensional splines
- Generate conditional QTL genotype probabilities for all kinds of breeding populations by a continuous time Markov process, used in genetic map construction and QTL mapping, and mixed model estimation algorithms for multi-trait analysis. icon_service Makes state of the art statistical and decision support methods accessible to a wide audience of breeders and geneticists via intuitive user interfaces. The modularity of the pipeline allows easy adaptation to specific.
- Providing added value – organisations may have more success with financial support and funding if they are seen to be innovating in areas such as quantitative genetics – Wageningen have known expertise in this area which they bring to the H3 Collaboration.
- Offering problem solving across large collections of high dimensional data (genomic and phenotypic).
- Fast procedures for single and multi-trait/ environment QTL analysis.
- Based on R procedures that call on the latest ASReml-R mixed model procedures.
- Makes state of the art statistical and decision support methods accessible to a wide audience of breeders and geneticists via intuitive user interfaces. The modularity of the pipeline allows easy adaptation to specific user requirements.
- Innovative areas such as quantitative genetics often carry a high weighting when securing financial support and funding. H3 are known leaders in quantitative genetics and can help organisations develop their quantitative genetics analysis.
A Statistical Genetics Pipeline for Breeding Innovation
The H3 collaboration draws on our expertise and highly respected plant analysis software to offer a statistical genetic breeding pipeline
Why Should You Choose H3 For Your Plant Breeding Analysis?
Together the H3 consortium are world leaders in the advancement of data analysis and statistical solutions for the plant breeding sector. Our plant analysis software and trusted expertise is used across the globe in a variety of specialist fields. Find out what else we have to offer by viewing our case studies.
Case Studies
Drawing on our complimentary world-class expertise, tools and experience in plant breeding, analytics and visualisation, Biometris, VSNi and The James Hutton Institute have come together to build H3.
Our Plant Breeding Analysis Consortium
Wageningen University and Research (WUR) is a collaboration between Wageningen University and the Wageningen Research foundation. WUR offer unparalleled resource and expertise in bioscience and statistical genetics. Biometris is the central group for mathematics and statistics at WUR. As well as providing courses for WUR students in statistics, mathematics and research methodology, Biometris also provides statistical, mathematical and methodological research and consultancy for industry.
The James Hutton Institute combines strengths in crops, soils and land use and environmental research to deliver fundamental and applied science to drive the sustainable use of land and natural resources. The Information and Computational Sciences (ICS) department bring together an exceptional combination of scientific skills and expertise. This ranges from genome scale bioinformatics to the modelling of edaphic or climate information on a geographical scale.
VSNi develops and supplies statistical analysis software and experimental design software for bioscience and is a world leader in analysis solutions for plant breeding activities. Designed by statisticians, our products meet the ever changing demands of researchers, scientists, analysts and breeders looking for exceptional decision making solutions that can accommodate increasingly large and complex datasets. VSNi’s highly trusted products which include Genstat, ASReml and CycDesigN among others, are well established and essential components in breeding programs around the world.