Using the Data Browser
Here's a visual walk-through of using the Data Browser:
- Access the Data Browser
- Filter your results
- Choose values
- Search attributes
- View the Details page
- Save results with Permalinks
- Configure the filters
- Modify and remove filters with the Filters Chiclet
- Switch layouts
- Using the 3D viewers
- Use keystrokes and the mouse to navigate the 3D viewer
Click here or in the menu click Data then Data Browser. You can also use these bookmarks:
- By Organism:
- By Genomics Data:
- By Imaging Modality:
Choose an attribute in the sidebar. In this example, we're choosing "Data Types".
Now we can see all of the data types available in FaceBase data and have chosen "Expression microarray - gene". You can choose as many as you want. Your choices are reflected in 'chiclets' in the main content of the page. Hover over the bolded text in the chiclet to see all of the values included.
To go back to the default sidebar view, just click the top row with the blue left arrow:
The Search within attributes... box at the top of the sidebar allows you to type in a keyword and see which attributes include that keyword.
In the following example, typing "yang" resulted in two results, under "Investigator" and "Funding".
When you click Investigator, you'll see the result that included "yang" ready for your to select.
Click on the title of a result to view its Details page.
Here you'll see all of the available informations about the dataset including genomic information, anatomical source and age stage.
Scroll down further for the data itself in the form of 2D images, file downloads and/or 3D images, depending on the dataset.
Note: You must be logged in to download data. Your old FaceBase logins will not work in the new system. You need to sign up for a new account to download files.
You can save searches or details pages anytime by bookmarking the "Permalink" at the top of the page.
There are many more available attributes to refine your search - you can configure which ones appear when you click the View all attributes row at the bottom of the sidebar.
Here, we'll choose to add Mouse Genetic Background as an attribute.
Now when you go back to the default sidebar, you'll be able to choose data by Mouse Genetic Background.
When you choose attributes, they appear as "chiclets" above your results. To choose different values, click the value displayed and the corresponding sidebar will open, allowing you to modify your selections.
To remove a chiclet, simply click the "x" icon on its left side. You can also click the Clear All Filters chiclet to remove all of them at the same time.
The FaceBase 2 Data Browser includes interactive 3D viewing when datasets include 3D images.
Note that 3D viewing requires WebGL. It's enabled by default on the latest versions of browsers, but requires a certain amount of memory and bandwidth. See this page for more information if you're having issues viewing the images.
Here is a detail page of a dataset that includes some 3D images. We'll scroll down to and expand the Preview section...
and click load to load the smaller viewer into the page.
Use your cursor to move the image in the viewer. Hover over Volume to open more controls.
Click the Enlarge link below the preview to open a full-size viewer in a separate browser tab.
The 3D viewer allows you to use your mouse and keys to manipulate the view:
Note that Internet Explorer 11 only supports the ability of using the mouse wheel to zoom in and out.
Using your mouse:
- LEFT CLICK + MOVE: Rotate the scene or Window/Level adjustment in 2D
- SHIFT + LEFT CLICK or MIDDLE CLICK: Pan the scene
- MOUSE WHEEL UP: Zoom In, fast
- MOUSE WHEEL DOWN: Zoom Out, fast
- RIGHT CLICK + MOVE UP: Zoom In, fine
- RIGHT CLICK + MOVE DOWN: Zoom Out, fine
Using your keyboard:
- ARROW KEYS: Rotate the scene
- SHIFT + ARROW KEYS: Pan the scene
- ALT + UP: Zoom In, fast
- ALT + DOWN: Zoom Out, fast
- ALT + LEFT: Zoom In, fine
- ALT + RIGHT: Zoom Out, fine
- r: Reset the view to default based on bounding box of all visible objects or a manual configured camera position