Image Analysis Wizard

This wizard guides you through the setup of an image analysis. It is only available if you have licensed functionality for Image Analysis or 3D Image Analysis. Note that some of the parameters differ depending on whether you set up a 2D or a 3D analysis.

The following basic controls enable you to move through the steps:

Parameter	Description
Next	Moves on to the next step of the wizard.
Back	Moves back to the previous step of the wizard.
Cancel	Cancels the wizard. No changes are applied to your settings.
Finish	Saves the setup and the changes based on your progress and closes the wizard.

Classes

In this step you can define the classes into which the measured objects in the image are divided.

Parameter		Description
Interactive		Activated: The class definition can be changed interactively while the analysis setting is run with Start Interactive Analysis.
Class List		Displays the defined classes. If you create a new analysis setting, a predefined set of classes is created automatically. The classes list differs if you have a 3D analysis setting. For a 2D analysis, each class consists of two entries. The first entry concerns the entirety of all objects belonging to the class. The second entry represents the individual objects. For a 3D analysis, each class consists only of one entry.
Add Class		Adds a new individual class to the list on the base level.
Add Subclass		Adds a new subclass to the selected class.
Remove Class		Deletes the selected class from the list.
Name		Defines the name for the selected class in the list. Note that you must not use the name Root for one of your classes as this a reserved keyword.
Channel		Selects the channel that is used for image segmentation of the selected class in the Classes list.
Color		Selects the color to mark the objects of a class.
Object Color		Only visible if you have selected a class entry for individual object.
–	Random	The objects found by the analysis will be colorized randomly.
–	Fixed	Selects the fixed color to mark the objects of a class.

Frame

In this step you can define one or more measurement frames. Only the area within the measurement frames gets analyzed. You can also define how the analysis treats objects that are cut by the border of the image or the frame.

Parameter		Description
Interactive		Activated: The measurement frame definition can be changed interactively while the analysis setting is run with Start Interactive Analysis.
Select Frame		Enables you to select already created measurement frames. To select a measurement frame, click inside it. To select several measurement frames, press the Ctrl key and click inside the desired measurement frames. Once you have selected a measurement frame, you can change its size.
Draw Rectangle		Enables you to create a rectangle as a measurement frame in the current image.
Draw Circle		Enables you to create a circle as a measurement frame in the current image.
Draw Contour (Polygon)		Enables you to create a contour as a measurement frame in the current image.
Remove All Frames		Removes all drawn-in measurement frames in the current image. To delete single frames, select them and press Del.
Maximize Circle		Only available for 2D settings and only active if you have defined precisely one circle. Activated: Maximizes the drawn-in circle to the full image size. In the case of rectangular images the circle is adjusted to the shorter side.
Center Circle		Only available for 2D settings and only active if you have defined precisely one circle. Activated: Centers the drawn-in circle to the full images size.
Mode		Selects how the measurement frame should be applied. Note that this behavior is only applied when running the analysis (interactively) and not during the setup. The setup always uses the Cut at Frame mode. The following modes are available:
-	Inside Only	Measures only those objects, that are lying completely within the measurement frame. Objects that are touching the frame or are intersected by the frame are not analyzed.
-	Cut at Frame	Measures all objects that are lying within the measurement frame. Objects that are intersected by the measurement frame are measured precisely up to the measurement frame.
The following fields are only active if you have selected a drawn-in graphic element:
Left		Sets the starting point for the frame on the X axis in pixels.
Top		Sets the starting point for the frame on the Y axis in pixels.
Width		Sets the width of the frame in pixels.
Height		Sets the height of the frame in pixels.
Color		Selects the color of the frame.
Show Frame On Analyzed Image		Activated: Displays the frame on the image after the analysis has run.

Results Preview

In this step you see a preview of the measurement result. The results table contains only the measurements performed in the current view port. These results may differ from the actual results when the complete image analysis is performed. This increases the performance during the setup.

The results in the table depend on the settings you made in the Feature step. The table contains all selected features for the highlighted class/classes. Click on a row of the table to highlight the corresponding object in the image or vice versa.

The measured image is displayed in the Analysis View.

Parameter		Description
Classes		Here you can select the class for which you want to see the measured features. For a 2D analysis setting, there are two entries for each class: The "parent" class, which shows the features for all objects together, and the "child" class, which shows the features for each individual object. For a 3D analysis setting, there is only one entry per class.
Highlight Box
-	Color	Allows you to set the color of the highlight box surrounding the selected object in the image.
-	Line Width	Allows you to set the line width of the highlight box around the selected object in the image.
Enable Chart		Only visible for 2D image analysis settings. Activated: Displays a chart with measurement results in the Analysis View by default. Deactivated: Displays no chart in the Analysis View by default.
Chart Type		Only visible for 2D image analysis settings. Sets the default chart type that will be displayed in the Analysis View. With the two buttons, you can either select the Scatter Chart or the Histogram Chart as default.
X-Axis		Only visible for 2D image analysis settings. Selects the default feature that is displayed on the x-axis of the chart in the Analysis View. The elements displayed in the drop down menu depend on the previously defined measurement features.
Y-Axis		Only visible for 2D image analysis settings and only available for the scatter chart. Selects the default feature that is displayed on the y-axis of the chart in the Analysis View. The elements displayed in the drop down menu depend on the previously defined measurement features.
Multiple Scenes		Only visible for 2D image analysis settings and only available for multi-scene images. Activated: Sets as the default chart a histogram/ scatter chart that contains the data points of all scenes.
Time Series		Only visible for 2D image analysis settings and only available for time series images. Activated: Sets as the default a chart that displays the analysis results of the selected class in a time series chart.
Heatmap		Only visible for 2D image analysis settings and only available for experiments with multi well/ multi chamber plates (multiple scenes). Activated: Sets as the default chart a heatmap of the well plate.
Back		Moves back to the previous step of the wizard.
Finish		Saves the created analysis setting and ends the wizard.
Cancel		Cancels the analysis setting and closes the wizard.

Image Analysis Wizard

Classes

Frame

Results Preview

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