EagleView genome viewer

EagleView visualizes and integrates next-generation sequencing reads from technologies such as 454 (Roche) and Illumina to inspect genome assemblies, validate alignments, and detect polymorphisms.

Key Features:

• Data integration: Integrates diverse sequencing reads and supports coassembly views that combine mixed-type reads from different technologies.
• Visualization: Provides information-rich genome assembly views including compact assembly overviews and pinpoint views with technology-specific trace information.
• Annotation integration: Overlays genome feature annotations onto assemblies to link functional genomic information with assembled sequences.
• Scalability: Handles large-scale genome assemblies comprising millions of reads for extensive genomic projects.
• Alignment and assembly validation algorithms: Implements robust algorithms for read alignment and assembly validation to support high-quality reconstruction and inspection.

Scientific Applications:

• Polymorphism discovery: Enables genome-wide polymorphism detection and visual validation of candidate variants within the assembly context.
• Comparative genomics: Supports comparative analyses by visualizing assemblies and annotations derived from multiple sequencing technologies.
• Functional genomics: Facilitates interpretation of gene function and regulation by integrating annotations with assembly and read evidence.

Methodology:

EagleView implements algorithms for read alignment and assembly validation and generates coassembly views that combine mixed-type sequencing reads.