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Vesper: Visualising species archives (2014)
Journal Article
Graham, M., & Kennedy, J. (2014). Vesper: Visualising species archives. Ecological Informatics, 24, 132-147. https://doi.org/10.1016/j.ecoinf.2014.08.004

Vesper (Visual Exploration of SPEcies-referenced Repositories) is a tool that visualises Darwin Core Archive (DwC-A) datasets, and is aimed at reducing the amount of time and effort expended by biologists to ascertain the quality of data they are gen... Read More about Vesper: Visualising species archives.

MaTSE: the gene expression time-series explorer. (2013)
Journal Article
Craig, P., Cannon, A., Kukla, R., & Kennedy, J. (2013). MaTSE: the gene expression time-series explorer. BMC Bioinformatics, 14, https://doi.org/10.1186/1471-2105-14-S19-S1

Background High throughput gene expression time-course experiments provide a perspective on biological functioning recognized as having huge value for the diagnosis, treatment, and prevention of diseases. There are however significant challenges to... Read More about MaTSE: the gene expression time-series explorer..

VIPER: a visualisation tool for exploring inheritance inconsistencies in genotyped pedigrees (2012)
Journal Article
Paterson, T., Graham, M., Kennedy, J., & Law, A. (2012). VIPER: a visualisation tool for exploring inheritance inconsistencies in genotyped pedigrees. BMC Bioinformatics, 13/8, https://doi.org/10.1186/1471-2105-13-S8-S5

Pedigree genotype datasets are used for analysing genetic inheritance and to map genetic markers and traits. Such datasets consist of hundreds of related animals genotyped for thousands of genetic markers and invariably contain multiple errors in bot... Read More about VIPER: a visualisation tool for exploring inheritance inconsistencies in genotyped pedigrees.

Visualising errors in animal pedigree genotype data (2011)
Journal Article
Graham, M., Kennedy, J., Paterson, T., & Law, A. (2011). Visualising errors in animal pedigree genotype data. Computer Graphics Forum, 30, 1011-1020. https://doi.org/10.1111/j.1467-8659.2011.01950.x

Genetic analysis of a breeding animal population involves determining the inheritance pattern of genotypes for multiple genetic markers across the individuals in the population pedigree structure. However, experimental pedigree genotype data invariab... Read More about Visualising errors in animal pedigree genotype data.

Research directions in data wrangling: Visualizations and transformations for usable and credible data (2011)
Journal Article
Kandel, S., Heer, J., Plaisant, C., Kennedy, J., Ham, F. V., Riche, N. H., …Buono, P. (2011). Research directions in data wrangling: Visualizations and transformations for usable and credible data. Information Visualization, Octobe, 271-288. https://doi.org/10.1177/1473871611415994

In spite of advances in technologies for working with data, analysts still spend an inordinate amount of time diagnosing data quality issues and manipulating data into a usable form. This process of ‘data wrangling’ often constitutes the most tedious... Read More about Research directions in data wrangling: Visualizations and transformations for usable and credible data.

A survey of multiple tree visualisation. (2010)
Journal Article
Graham, M., & Kennedy, J. (2010). A survey of multiple tree visualisation. Information Visualization, 9, 235-252. https://doi.org/10.1057/ivs.2009.29

This paper summarises the state-of-the-art in multiple tree visualisations. It discusses the spectrum of current representation techniques used on single trees, pairs of trees and finally multiple trees, in order to identify which representations are... Read More about A survey of multiple tree visualisation..

Visual Exploration of Alternative Taxonomies through Concepts (2007)
Journal Article
Graham, M., & Kennedy, J. (2007). Visual Exploration of Alternative Taxonomies through Concepts. Ecological Informatics, 2, 248-261. https://doi.org/10.1016/j.ecoinf.2007.07.004

A graphical user interface is presented that allows users of taxonomic data to explore concept relationships between conflicting but related taxonomic classifications. Ecological analyses that use taxonomic metadata depend on accurate naming of spe... Read More about Visual Exploration of Alternative Taxonomies through Concepts.

Exploring multiple trees through DAG representations (2007)
Journal Article
Graham, M., & Kennedy, J. (2007). Exploring multiple trees through DAG representations. IEEE Transactions on Visualization and Computer Graphics, 13, 1294-1301. https://doi.org/10.1109/TVCG.2007.70556

We present a Directed Acyclic Graph visualisation designed to allow interaction with a set of multiple classification trees, specifically to find overlaps and differences between groups of trees and individual trees. The work is motivated by the need... Read More about Exploring multiple trees through DAG representations.

A standard data model representation for taxonomic information. (2006)
Journal Article
Kennedy, J., Hyam, R., Kukla, R., & Paterson, T. (2006). A standard data model representation for taxonomic information. OMICS, 10, 220-230. https://doi.org/10.1089/omi.2006.10.220

The names used by biologists to label the observations they make are imprecise. This is an issue as workers increasingly seek to exploit data gathered from multiple, unrelated sources on line. Even when the international codes of nomenclature are fol... Read More about A standard data model representation for taxonomic information..

Novel visualisation techniques for working with multiple, overlapping classification hierarchies (2002)
Journal Article
Graham, M., Watson, M. F., & Kennedy, J. (2002). Novel visualisation techniques for working with multiple, overlapping classification hierarchies. Taxon, 51, 351-358

A Java-based program is presented that provides a visualisation tool for display of and comparison between classification hierarchies. Taxa, or groups of taxa, can be tracked across multiple, overlapping classifications. Recognition of congruence and... Read More about Novel visualisation techniques for working with multiple, overlapping classification hierarchies.

A framework for information visualisation (1996)
Journal Article
Kennedy, J., Mitchell, K., & Barclay, P. J. (1996). A framework for information visualisation. SIGMOD record, 25, 30-34

In this paper we examine the issues involved in developing information visualisation systems and present a framework for their construction. The framework addresses the components which must be considered in providing effective visualisations. The fr... Read More about A framework for information visualisation.