Living Image 3.1

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5. Working With ROI Tools 72 Table 5.2 Tool palette, ROI tools Item Description Type Choose the ROI type from the drop-down list: Measurement - Measures the signal intensity in an area of an image. Average Bkg - Measures the average signal intensity in a user-specified area of the image that is considered background. Subject ROI - Identifies a subject animal in an image. The software automatically associated a measurement and average bkg ROI included in the same subject ROI. Using this type of ROI is optional. Save ROIs Name The name of the selected ROI set or the default name for a new ROI set. Delete Deletes the selected ROI set from the system. Note: This permanently removes the ROI from the system. Load Applies the ROI set selected from the Name drop-down list to the active image. Save Saves the ROI set in the active image. Note: This is a global save (the ROI is saved to the system) and the ROI set can be loaded onto any image. If you use the File ➞ Save commands to save an image that includes an ROI, the ROI is saved with the image only (not a global save) and is not available for loading onto other images. For more details, see Saving ROIs, page 89. Auto ROI Parameters that specify how the auto ROI tool draws an ROI. Note: These Parameters are advanced options that are only available if “Show Advanced Options” is selected in the general preferences. Threshold % If the Auto All or Auto 1 method is selected, the Threshold % specifies the minimum per cent of peak pixel intensity that a pixel must have to be included in an ROI identified by the software. Note: After ROIs are drawn on an image, if you modify the Threshold% (move the slider or enter a new value) the software automatically updates the ROIs. Lower Specifies a multiple (1 to 10) of the color bar minimum that sets the lower Limit threshold for identifying an ROI. For example, if the lower limit = 2 and the color bar minimum = 1000 counts, then the auto ROI tool will only draw an ROI on areas of 2000 counts or greater. This helps create ROIs only in the visible range. Minimum Sets the minimum size of an ROI (measured in pixels). For example if the Size minimum size is set at 50, then ROIs created on the image must be greater than 50 pixels in size. Preview If this option is chosen, the software draws the ROI each time a parameter is changed. ROI parameters can be saved without drawing the ROI. Use Bkg Choose this option to measure background-corrected signal. For more details, Offset see page 79. Replace If this option is chosen, all auto ROIs are replaced when new ROI(s) are ROIs created. Restore Restores the factory-set defaults for the auto ROI parameters. Defaults Save/Load Click to display or hide the tools that enable you to save, load, or delete auto ROIs in the active data. Note: The save function saves parameters, the not actual ROIs. This means that when you load saved auto ROI parameters, the software draws a new ROI using the saved values (Threshold%, Lower Limit, Minimum Size).
<strong>Living</strong> <strong>Image</strong> ® Software User’s Manual 5.3 Quick Guide to Drawing a Measurement ROI These steps provide a quick guide on how to obtain the intensity signal in a measurement ROI. For more details about measurement ROIs, see page 74. 1. Open an image or image sequence and click ROI Tools in the tool palette. 2. In the ROI tools, select Measurement ROI from the Type drop-down list. 3. Click the Contour button and select Auto All from the drop-down list. - The software automatically draws measurement ROIs on the image. The ROI label shows the total intensity in the ROI. If you are working with a sequence, open an image to view the intensity label. 4. If it is necessary to adjust the ROI boundaries, change any of the auto ROI parameters (use the slider or arrows): Threshold % - Specifies the minimum per cent of peak pixel intensity that a pixel must have to be included in an ROI identified by the software NOTE After the ROIs have been created, right-click an ROI to view a shortcut menu of ROI commands (Ctrl-click for Macintosh users). The shortcut menu provides easy access to many functions for managing ROIs and viewing ROI properties. 5. To show the ROI Measurements table, click the Measure button . 73
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Living Image 3.1

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