- Genome Browser
- My Data
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This is a UCSC Genome Browser Mirror hosted by the Genetics and Genomics Analysis Platform
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Below are all available graphing tracks that can be added to any collection. Click the arrow to the left of each folder below to show/hide tracks. Click the green "plus" symbol to add a track to any selected collection in the right window. See "Getting Started" below for tips.
To make a new collection of tracks, click the 'Add Collection' button above. Once saved, double-click the new collection to edit the name, description, and graph color. To remove a track from a collection, click the red "minus" symbol to the left of each track. Click "GO" (upper right) to see collections in the browser.
Note: You must save your session to preserve collections long-term.
The Track Collection Builder (My Data > Track Collection Builder) is a tool that allows multiple tracks to be copied and grouped together into one composite track or "collection." A composite track can be thought of as a container for grouping a set of similar-type annotation tracks.
Two-minute video: Track Collection Builder - Demo
Only the following continuous-value graphing track types can be added to a collection:
Supported tracks from the following sources can be added to a single genome browser:
The "Collected Tracks" top right pane displays all created collections.
The 'Available Tracks' top left pane displays all available graphing tracks that can be added to any collection.
When viewing collections within the browser, the following viewing options are available:
Drag and drop collections (composite tracks) within the browser to rearrange the order in which they appear in the browser.
To sort by similarity, right-click the collection in the browser window and select . For the given region visible in the browser window, tracks within the collection will sort in order of similarity. Sorting by similarity counts the number of pixels set in each column and then uses matrices to build a neighbor joined tree, which then has its leaves sorted to make an optimal ordering. The source of the optimal leaf sorting algorithm is credited below.
To sort by magnitude, right-click the collection in the browser window and select . For the given region visible in the browser window, tracks within the collection will sort in order of magnitude, with the highest in magnitude at the top of the subtracks in the collection where magnitude reflects the total number of pixels set when drawing each track.
Tip: Displaying collection names in the browser:
Once a collection has been created and tracks have been added to it, click (upper right) to view the collection in the browser window. In the browser, mouse-over the gray vertical buttons at the left window frame to see the name of each collection.
Track color for all subtracks in a collection can be set by double-clicking the collection folder in the right window of the Track Collection Builder, which will display a pop-up dialog box. In the pop-up, a color can be set for the subtracks in the collection. Color will be applied as a gradient to subtracks in the collection (e.g., if red is selected, the subtrack graphs will appear in varied shades of red within the browser window).
To revert back to the original track color, change the color picker to '#000000'. To change the track color to black rather than any non-black original color, set the color picker to any shade of black besides '#000000', such as '#000001'. For example, if a track's original color is green, you can change it to red with the color picker. To change this track back to the original color (green), set the color picker to '#000000'. If you instead want to change that track to black, select any shade of black in the color picker, such as '#000001'.
Tracks in collections can be displayed with multiWig aggregate/overlay "merge" methods (stacked, transparent, etc.) as well as new add & subtract options.
Collections will be available 48 hours before expiring. You must save your session to preserve collections long-term and to allow sharing. Even after saving collections and their configurations in a session, it is still highly recommended to keep local back-ups of your session contents and any associated custom tracks.