Research Output

Helium: visualization of large scale plant pedigrees.

  Plant breeders use an increasingly diverse range of data types to identify lines with desirable characteristics suitable to be taken forward in plant breeding programmes. There are a number of key morphological and physiological traits, such as disease resistance and yield, that need to be maintained and improved upon if a commercial variety is to be successful. Computational tools that provide the ability to integrate and visualize this data with pedigree structure, will enable breeders to make better decisions on the lines that are used in crossings to meet both the demands for increased yield/production and adaptation to climate change. We have used a large and unique set of experimental barley (H. vulgare) data to develop a prototype pedigree visualization system. We then used this prototype to perform a subjective user evaluation with domain experts to guide and direct the development of an interactive pedigree visualization tool called Helium. We show that Helium allows users to easily integrate a number of data types along with large plant pedigrees to offer an integrated environment in which they can explore pedigree data. We have also verified that users were happy with the abstract representation of pedigrees that we have used in our visualization tool.

  • Type:

    Article

  • Date:

    30 November 2013

  • Publication Status:

    Published

  • Publisher

    BioMed Central

  • DOI:

    10.1186/1471-2105-15-259

  • Library of Congress:

    QA75 Electronic computers. Computer science

  • Dewey Decimal Classification:

    004.2 Systems analysis, design & performance

Citation

Shaw, P., Graham, M., Kennedy, J., Milne, I. & Marshall, D. F. (2013). Helium: visualization of large scale plant pedigrees. BMC Bioinformatics. 15, 259. doi:10.1186/1471-2105-15-259. ISSN 1471-2105

Authors

Keywords

Plant breeders; data; pedigree visualization system; Helium;

Monthly Views:

Available Documents