INSPIRING FUTURES

VIPER: a visualisation tool for exploring inheritance inconsistencies in genotyped pedigrees.

Paterson, Trevor, Graham, Martin, Kennedy, Jessie and Law, Andy (2012) VIPER: a visualisation tool for exploring inheritance inconsistencies in genotyped pedigrees. BMC Bioinformatics, 13/8 (S5).

Full text not available from this repository. (Request a copy)

Abstract/Description

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 both the pedigree structure and in the associated individual genotype data. These errors manifest as apparent inheritance inconsistencies in the pedigree, and invalidate analyses of marker inheritance patterns across the dataset. Cleaning raw datasets of bad data points (incorrect pedigree relationships, unreliable marker assays, suspect samples, bad genotype results etc.) requires expert exploration of the patterns of exposed inconsistencies in the context of the inheritance pedigree. In order to assist this process we are developing VIPER (Visual Pedigree Explorer), a software tool that integrates an inheritance-checking algorithm with a novel space-efficient pedigree visualisation, so that reported inheritance inconsistencies are overlaid on an interactive, navigable representation of the pedigree structure.

Item Type: Article
Electronic ISSN: 1471-2105
Uncontrolled Keywords: Pedigree genotype datasets; genetic inheritance; VIPER; Visual Pedigree Explorer;
University Divisions/Research Centres: Edinburgh Napier University, Institute for Informatics and Digital Innovation
Dewey Decimal Subjects: 000 Computer science, information & general works > 000 Computer science, knowledge & systems > 005 Computer programming, programs & data
Library of Congress Subjects: Q Science > QA Mathematics > QA76 Computer software
Item ID: 5227
Depositing User: Computing Research
Date Deposited: 26 Apr 2012 13:56
Last Modified: 22 Nov 2012 15:06
URI: http://researchrepository.napier.ac.uk/id/eprint/5227

Actions (login required)

View Item

Edinburgh Napier University is a registered Scottish charity. Registration number SC018373