You can change the shading parameters for the Coverage chromatogram, including the shading colors assigned to each protein in your experiment.

Prerequisites

  1. You have loaded the experiment results are viewing the Coverage page under the Mapping tab.

Procedure

  1. Right-click anywhere in the Coverage Results table and select Shading Parameters from the shortcut menu.
  2. The Shading Parameters dialog box opens.
  3. image/svg+xml
    Figure Shading Parameters dialog box
  4. Enter the following parameters:
  5. Mass Area Threshold: Type a number for the minimum area threshold.
  6. The chromatogram does not display peaks with areas below this threshold in the chromatogram.
  7. Charge States: Type the minimum and maximum values for the range of charge states to display in the chromatogram.
  8. Maximum Mass Error (ppm): Type a value (in ppm) for the maximum mass difference (between the Theor. Mass and Mono Mass Exp.) threshold.
  9. The chromatogram does not display any peaks for an identified component with a mass error above this threshold.
  10. Identification Types: Select the check boxes to view only the components identified by the selected identification types. This selection affects the components displayed in the Coverage chromatogram and at the component level in the Coverage Results table.

  11. TIP

    To view only unidentified components in the Coverage chromatogram, select only the "None" check box as the Identification Type.

  12. Protein Color Assignment table: Click the drop-down color menu to select a shading color for a particular protein. Select or clear the "Inc" ("include") check box for a particular protein if you want to show or hide the protein in the Coverage Results table and its corresponding shading in the Coverage chromatogram. You can select or clear multiple check boxes as needed.

  13. IMPORTANT

    The Coverage chromatogram shading settings are not related to the color-coding displayed in the Sequence Coverage Map on the Coverage page.

    For more information on the color-coding used in the Sequence Coverage Map, see View the Sequence Coverage Map.

  14. Click Apply.
  15. The chromatogram updates based on your settings.