Genome Browser Module
Interactive genome visualization and exploration using JBrowse2
Module Overview
The Genome Browser module provides interactive genome visualization and exploration capabilities using JBrowse2 technology. This module serves as the central hub for viewing genomic features, annotations, and comparative analysis across different insect species.
Key Features
- 1Filter and select target species genomes for visualization and analysis
- 2Access advanced genome browser functionality powered by JBrowse2 technology
Species Genome Selection
1
Genome Filtering
Select and filter target species genomes from the comprehensive InsectBase database for visualization and analysis.
Selection Options
- Species Search: Search by scientific name or common name
- Taxonomic Filtering: Filter by order, family, or genus
- Genome Quality: Filter by assembly quality and completeness
- Annotation Status: Select genomes with specific annotation levels
JBrowse2 Genome Browser
2
Advanced Visualization
Access powerful genome browser functionality powered by JBrowse2 for comprehensive genomic data exploration and analysis.
Core Features
- • Interactive genome navigation
- • Multi-track visualization
- • Zoom and pan controls
- • Feature search and filtering
- • Export capabilities
Data Tracks
- • Gene annotations
- • Repeat elements
- • Variant calls
- • Expression data
- • Comparative genomics
JBrowse2 Capabilities
Navigation
- • Smooth scrolling and zooming
- • Jump to specific coordinates
- • Bookmark important regions
- • Overview panel for context
Visualization
- • Multiple track types
- • Customizable track colors
- • Track height adjustment
- • Feature detail views
Analysis
- • Feature search and filter
- • Sequence extraction
- • Export selected regions
- • Comparative analysis tools
Usage Tips for Optimal Results
Species Selection
- Use scientific names for most accurate results
- Filter by taxonomic groups to narrow down options
- Check genome quality metrics before selection
- Consider annotation completeness for your analysis
Browser Navigation
- Use the overview panel for genomic context
- Adjust track heights for better visibility
- Use search function to find specific features
- Bookmark interesting regions for later reference
Usage Examples
Example 1: Exploring Drosophila Genome
- Search for “Drosophila melanogaster” in the species filter
- Select the highest quality genome assembly available
- Open the genome browser to view chromosome structure
- Navigate to specific genes or genomic regions of interest
- Use track controls to show/hide different annotation types
Example 2: Comparative Analysis
- Select multiple related species for comparison
- Load comparative genomics tracks in the browser
- Navigate to syntenic regions across species
- Compare gene order and structure differences
- Export regions of interest for further analysis
Available Data Types
Genome Sequences
Chromosome assemblies
Gene Annotations
Gene models and features
Repeat Elements
Transposable elements
Expression Data
RNA-seq tracks