Frequently Asked Questions


Grey cells indicate missing values. The Heatmap table in the Pathway View shows lists all the pathway entities of the same type as that of the input experiment. However, data values are only shown for matching entities with the input experiment.

Yes, you can view data from a different group of conditions by clicking the Choose another Interpretation icon and selecting another interpretation. Please note that this selection and the associated changes in the Pathway Viewer and the Heatmap table are not saved when the pathway list is closed.

GeneSpring provides an option to view a Profile Plot of your genes of interest in a pathway. To use this feature, select the genes of interest either from the pathway viewer or the Heatmap table and then click on the Launch Profile Plot icon from the Pathway View Toolbar. A continuous (numerical) or non-continuous (categorical) plot is displayed in a new window based on the interpretation selected during the pathway analysis workflow.

By default, the Heatstrips displayed in the Pathway Viewer and in the Heatmap table are normalized signal values. To view raw signal values instead, follow these steps:

  1. Right-click over the Pathway Viewer
  2. Select Display Settings
  3. In the Data tab of the Pathway Properties Dialog that opens, select Raw Signal Values from the Data Chooser drop-down list
  4. Click OK

The Heatstrips in the Pathway Viewer and the Heatmap table now display the raw signal values for matching entities between the pathway and the experiment.

The height of a Heatstrip represents an entity’s signal/abundance value at the various experimental conditions.