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Evaluating the VIPER pedigree visualisation: detecting inheritance inconsistencies in genotyped pedigrees.

Paterson, Trevor; Graham, Martin; Kennedy, Jessie; Law, Andy

Authors

Trevor Paterson

Martin Graham

Andy Law



Abstract

VIPER (Visual Pedigree Explorer) is a tool for exploring large complex animal pedigrees and their associated genotype data. The tool combines a novel, space-efficient visualisation of the pedigree structure with an inheritance-checking algorithm. This allows users to explore the apparent errors within the genotype data in the full context of the family and pedigree structure. Ultimately, the aim is to develop an interactive software application that will allow users to identify, confirm and then remove errors from the pedigree structure and scored genotypes. This paper describes an evaluation of how VIPER displays the different scales and types of data set that can occur, along with a description of the further interface functionality necessary to meet the challenges such data presents. This is followed by an examination of a range of possible pedigree genotype errors by replicating these errors in controlled simulated data sets and showing how they are manifested in the VIPER interface and observed by a domain expert. The data sets used include both real and artificially generated data, the advantage of the latter being that they produce known effects in the visualization which the domain expert can then interpret as being useful or unhelpful as they see fit.

Conference Name 1st IEEE Symposium on Biological Data Visualization
Start Date Oct 23, 2011
End Date Oct 24, 2011
Publication Date 2011
Deposit Date Nov 2, 2011
Publicly Available Date Dec 31, 2011
Peer Reviewed Peer Reviewed
Pages 119-126
Book Title 2011 IEEE Symposium on Biological Data Visualization (BioVis)
ISBN 978-1-4673-0003-2
DOI https://doi.org/10.1109/BioVis.2011.6094056
Keywords Pedigree visualisation; error visualisation; Interfacedesign; utility evaluation;
Public URL http://researchrepository.napier.ac.uk/id/eprint/4714
Publisher URL http://dx.doi.org/10.1109/BioVis.2011.6094056
Contract Date Nov 2, 2011

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