1st IEEE Symposium on
Biological Data Visualization

23-24 October 2011 / Providence, RI @ IEEE VisWeek

BioVis 2011 Paper

Evaluating the VIPER pedigree visualisation: detecting inheritance inconsistencies in genotyped pedigrees. Trevor Paterson, Martin Graham, Jessie Kennedy, Andy Law
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

BioVis 2011 Papers and Abstracts

<a href="../../papers_abstracts/papers/104.html">GenAMap: Visualization Strategies for Structured Association Mapping</a> <a href="../../papers_abstracts/papers/106.html">A Visual Analysis System for Metabolomics Data</a> <a href="../../papers_abstracts/papers/111.html">The Galaxy Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool</a> <a href="../../papers_abstracts/papers/113.html">TIALA - Time Series Alignment Analysis</a> <a href="../../papers_abstracts/papers/118.html">MDMap : A System for Data-driven Layout and Exploration of Molecular Dynamics Simulations</a> <a href="../../papers_abstracts/papers/124.html">Evaluating the VIPER pedigree visualisation: detecting inheritance inconsistencies in genotyped pedigrees.</a> <a href="../../papers_abstracts/papers/129.html">Fiber Stippling: An Illustrative Rendering for Probabilistic Diffusion Tractography</a> <a href="../../papers_abstracts/papers/130.html">Parallel Contour-Buildup Algorithm for the Molecular Surface</a> <a href="../../papers_abstracts/papers/133.html">Visualization of Anisotropic Contact Potentials within Protein Structures</a> <a href="../../papers_abstracts/papers/134.html">Visual Exploration of Microbial Populations</a> <a href="../../papers_abstracts/papers/136.html">Quick2Insight: A User-Friendly Framework for Interactive Rendering of Biological Image Volumes</a> <a href="../../papers_abstracts/papers/140.html">Visual Analysis of Next-Generation Sequencing Data to Detect Overlapping Genes in Bacterial Genomes</a> <a href="../../papers_abstracts/papers/144.html">Visualizing Virus Population Variability From Next Generation Sequencing Data</a> <a href="../../papers_abstracts/papers/148.html">Metrics for Comparing Explicit Representations of Interconnected Biological Networks</a> <a href="../../papers_abstracts/papers/149.html">RuleBender: Integrated Visualization for Biochemical Rule-Based Modeling</a> <a href="../../papers_abstracts/papers/150.html">iHAT: interactive Hierarchical Aggregation Table</a> <a href="../../papers_abstracts/papers/151.html">Semantically Steered Visual Analysis of Highly Detailed Morphometric Shape Spaces</a> <a href="../../papers_abstracts/papers/158.html">Modeling and Visualization of Receptor Clustering on the Cellular Membrane</a> <a href="../../papers_abstracts/papers/160.html">HiTSEE: A Visualization Tool for Hit Selection and Analysis in High-Throughput Screening Experiments</a> <a href="../../papers_abstracts/papers/168.html">EVEVis: A Multi-Scale Visualization System for Dense Evolutionary Data</a> <a href="../../papers_abstracts/abstracts/102.html">NGS Explorer: An Application for Visually Contextualizing and Interrogating Multivariate Omics Data</a> <a href="../../papers_abstracts/abstracts/103.html">Cell Illustrator/JS: Social Systems Biology</a> <a href="../../papers_abstracts/abstracts/104.html">Navigation and Exploration System for Stem Cell Image Data</a> <a href="../../papers_abstracts/abstracts/107.html">Seqeyes: A multi-scale interactive visualization tool for structural variations</a> <a href="../../papers_abstracts/abstracts/109.html">Analysis-Ready Meshes of Neuronal Forests</a> <a href="../../papers_abstracts/abstracts/110.html">DCE-MRI-oriented Volume Rendering for Monitoring of Crohn's Disease</a> <a href="../../papers_abstracts/abstracts/113.html">FoldSynth: A physics-based interactive visualisation platform for proteins and other molecular strands</a> <a href="../../papers_abstracts/abstracts/115.html">Toward Systems-Level Visualizations of Molecular Networks on Large-Scale, High-Resolution Displays</a> <a href="../../papers_abstracts/abstracts/116.html">3D Reconstruction and Visualization of the Developing Drosophila Wing Imaginal Disc at Cellular Resolution</a> <a href="../../papers_abstracts/abstracts/117.html">Interactive visualization of multiscale biomedical data: an integrated approach</a> <a href="../../papers_abstracts/abstracts/119.html">Reconstructing Neural Structures from Sparse User Scribbles</a> <a href="../../papers_abstracts/abstracts/120.html">Visualizing Global Correlation in Large-Scale Molecular Biological Data</a> <a href="../../papers_abstracts/abstracts/121.html">VESPA: Visual Exploration and Statistics to Promote Annotation for Prokaryotic Genomes</a> <a href="../../papers_abstracts/abstracts/122.html">Visualizing Genetic Transmission Patterns in Plant Pedigrees</a> <a href="../../papers_abstracts/abstracts/123.html">CluMa-GO: Bring Gene Ontologies and Hierarchical Clusterings Together</a> <a href="../../papers_abstracts/abstracts/124.html">Animating Cell Biology for Research and Teaching</a> <a href="../../papers_abstracts/abstracts/125.html">3D Reconstruction and Analysis of Bat Flight Maneuvers from Sparse Multiple View Video</a> <a href="../../papers_abstracts/abstracts/126.html">Visualization of experimental design & workflows in biological experiments</a> <a href="../../papers_abstracts/abstracts/131.html">Spatially Continuous Change of Abstraction in Molecular Visualization</a> <a href="../../papers_abstracts/abstracts/132.html">Fast Tracing of Microtubule Centerlines in Electron Tomograms</a> <a href="../../papers_abstracts/abstracts/133.html">Light Microscopy-Based Reconstruction and Interactive Structural Analysis of Cortical Neural Networks</a> <a href="../../papers_abstracts/abstracts/134.html">KnomePathways: A Tool to View and Query Gene Interaction Networks in Individual Human Genomes</a> <a href="../../papers_abstracts/abstracts/135.html">G-nome Surfer: a Tabletop Interface for Collaborative Exploration of Genomic Visualization</a> <a href="../../papers_abstracts/abstracts/136.html">FvNano: A Virtual Laboratory to Manipulate Molecular Systems</a> <a href="../../papers_abstracts/abstracts/137.html">Lessons Learned from Tool Development for Animal Movement Analysis</a> <a href="../../papers_abstracts/abstracts/140.html">InBox: In-situ Multiple-Selection and Multiple-View Exploration of Diffusion tensor MRI Visualization</a>