IGB

IGB visualizes and enables exploration of large genomic datasets by integrating genome-wide experimental data with reference datasets such as gene annotations.

Key Features:

• Real-time zooming and panning: Enables continuous zoom and pan navigation across genomic coordinates for multi-scale data inspection.
• Tiered track organization: Organizes genomic features and datasets into movable and adjustable tiers to control feature stacking and layout.
• Incremental and genome-scale data loading: Supports incremental data loading from remote web servers and genome-scale loading from local files.
• Genome graphs for quantitative data: Represents and enables dynamic manipulation of quantitative data as genome graphs to display numerical signals such as gene expression levels and variant frequencies in genomic context.
• Java implementation: Implemented in Java.

Scientific Applications:

• Gene expression analysis: Visualizing quantitative expression signals in genome graphs to relate expression to genomic loci.
• Variant interpretation: Displaying variant frequencies and quantitative metrics in genomic context for interpretation.
• Gene annotation and curation: Comparing experimental data with reference gene annotations for annotation validation and curation.
• Comparative genomics: Enabling visual comparison of genome-wide datasets across genomic regions for comparative analyses.

Methodology:

Implemented in Java; supports incremental data loading from remote web servers and genome-scale data loading from local files; represents quantitative data as genome graphs and supports real-time zooming and panning and organization of features into movable and adjustable tiers.