Basic Navigation
Understanding the interface and navigating through the Zebrafish Atlas.
Interface Overview
The Zebrafish Atlas interface is designed to be intuitive and research-focused, giving you quick access to zebrafish microanatomical and gene expression data.
Key Interface Components
- Main Navigation Bar: Located at the top of every page, providing access to main sections
- User Menu: Located in the top-right corner, providing account access and user-specific functions
- Content Area: The main display area that changes based on the selected section
- Footer: Contains links to documentation, contacts, and legal information
The Zebrafish Atlas is fully responsive and works on desktop computers, tablets, and mobile devices, though a larger screen is recommended for detailed image analysis.
Data Table Navigation
The Data Table is the primary entry point for exploring zebrafish images in the atlas:
Understanding the Data Table
The table is organized hierarchically:
- Developmental Stages: Rows represent different zebrafish developmental stages, sorted chronologically
- Orientations: Each stage has columns for different orientations (Coronal, Sagittal, Transverse)
- Slide Previews: Thumbnail images representing available slides for each stage/orientation combination
Navigation Features
- Expandable Rows: Click on a developmental stage to expand and see all slides
- Progress Indicators: Color-coded bars showing segmentation completion for each category
- Quick Preview: Hover over slide thumbnails to see a larger preview
- Direct Access: Click any thumbnail to open the full slide viewer for that image
To quickly find slides at a particular developmental stage, use the browser's search function (Ctrl+F or Cmd+F) to search for stages like "24hpf" or "5dpf".
Slide Viewer
The Slide Viewer is a powerful tool for examining zebrafish microanatomy in detail:
Viewer Controls
- Zoom: Mouse wheel up/down or use the + and - buttons
- Pan: Click and drag the image to move around
- Home: Click the home button to reset the view to the default position
- Information Panel: Toggle the panel with the info button to show/hide image metadata
- Navigation Arrows: Move between slides in the current stage/orientation
Information Panel Details
The information panel provides comprehensive metadata about the current slide:
- Basic Information: Developmental stage, orientation, species category
- Technical Details: Magnification, treatment, image dimensions
- Segmentation: Progress indicator and segmentation details
- Additional Data: Description, tags, and related information
When viewing large high-resolution images, zooming in on specific regions may take a moment to load at full resolution. This is normal behavior as the viewer loads detailed image tiles.
Search Functionality
The Zebrafish Atlas includes a comprehensive search system to help you find specific data:
Search Options
- Global Search: Use the search bar in the top navigation to search across all content
- Filtered Search: Use the advanced search options to filter by specific criteria
- Anatomical Search: Search for specific anatomical structures
Search Tips
| Search Type | Example | Results |
|---|---|---|
| Developmental Stage | 24hpf |
All 24 hours post fertilization images |
| Orientation | sagittal |
All sagittal section images |
| Anatomical Structure | retina |
Images with segmented retina structures |
| Species Variant | transgenic |
All transgenic zebrafish samples |
| Combined Search | 5dpf coronal brain |
5dpf coronal sections with brain structures |
Use quotation marks around phrases to search for exact matches (e.g., "olfactory bulb").
Keyboard Shortcuts
The Zebrafish Atlas supports various keyboard shortcuts to enhance your workflow:
General Navigation
| Shortcut | Action |
|---|---|
| / | Focus the search bar |
| ? | Show keyboard shortcut help |
| Esc | Close modals or cancel current action |
| Alt + H | Go to home page |
| Alt + D | Go to data table |
| Alt + R | Go to research page |
Slide Viewer Shortcuts
| Shortcut | Action |
|---|---|
| + or = | Zoom in |
| - | Zoom out |
| 0 | Reset zoom (home view) |
| ← | Previous slide |
| → | Next slide |
| I | Toggle information panel |
| F | Toggle fullscreen mode |
Keyboard shortcuts may vary slightly depending on your browser and operating system. Press ? at any time to see the current shortcuts available.