How are colors customized and an image downloaded?

Objective

View and download an image of breast cancer subtypes.

Skills Covered

• Changing background color.
• Changing color assignment for a categorical attribute.
• Using zoom in and zoom out controls.
• Exporting map image to a pdf file.

Steps

1. Open TumorMap
2. Go to the Edit menu and click on White Background

3. Observe that the map background changes to white
4. Click on Select Attribute drop down list, type in “brca” then click on BRCA Subtype

5. Observe that the legend on the right of the map changes to reflect an additional attribute and only BRCA tumors have the colors since only those tumors have the BRCA Subtype annotation

6. Observe that the Normal-like tumors are colored white and, therefore, are not visible on the white background. We will adjust the color of those tumors next
7. Go to the Edit menu and click on Colormap

8. A screen for configuring colors of categorical annotations will open. Notice that the Normal category in the BRCA Subtype annotation is configured to be white

9. Change this color to #00FFFF or another desired color and press the return or tab key

10. Close the Colormap configuration screen
11. Observe that the color of the Normal-like tumors in the legend and map have changed to the newly configured color

12. Go to the File menu, then Download, then PDF

13. Click on X to close the popup window (if you wish to not print the legend to the downloaded image, just uncheck the legend checkbox on the right side before closing the popup window)

14. Use your browser’s normal print function to save/print to PDF