Expression tracks
Both tracks can be shown in a Table (
) and a Graphical (
) view.
The expression track table view has the following options (figure 33.41).
- The "Filter to selection" only displays pre-selected rows in the table.
- The "Create track from Selection" will create a Track using selected rows.
- The "Select Genes in Other Views" button finds and selects the currently selected genes and transcripts in all other open expression track table views.
- The "Copy Gene Names to Clipboard" button copies the currently selected gene names to the clipboard.
Figure 33.41: RNA-Seq results shown in a table view.
An example of a track list containing expression results is shown in figure 33.42. In that figure, one of the tracks referred to in the track list has been opened in a linked view. Clicking on a row in that table moves the focus in the track list to the location referred to in that row. General information about linked views is available in Linked views. Information on creating and working with track lists is provided in Track lists.
Figure 33.42: A track list containing RNA-Seq results is open in the top of the viewing area, with an expression track open in a linked view beneath.
Reads spanning two exons are shown with a dashed line between each end (figure 33.42). The thin solid line represents the connection between two reads in a pair.
Table views of some track types offer buttons at the bottom related to linked viewing. For example, Expression or Statistical Comparison tracks have buttons for putting the focus on selected genes or transcripts in other views.
Expression tracks can also be used to annotate variants using the Annotate with Overlap Information tool. Select the variant track as input and annotate with the expression track. For variants inside genes or transcripts, information will be added about expression (counts, expression value etc) from the gene or transcript in the expression track. Read more about the annotation tool in Annotate with Overlap Information.