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Analysis View

Only visible if an image analysis has been performed.

The Analysis view displays the following:

  • the image from the analysis
  • the table containing the analysis results
  • a scatter chart or histogram

  1. To highlight the row of the table containing the measured values of an object, click on a segmented object in the image or in the chart. To highlight multiple rows, press Ctrl and click on multiple object/ data points.
  2. To highlight the corresponding segmented object in the image, click on a row in the table or on the data point in the chart. To highlight multiple objects, press Ctrl and click on multiple rows/ data points.
  3. To highlight the measured value of an object in the scatter chart or in the histogram, click on one or more rows in the table. The corresponding data point in the chart turns red. To change the chart type, on the Custom Chart tab, click on the corresponding Chart Type button. To highlight multiple objects, press Ctrl and click on multiple rows/ objects.

You can also move your stage in the Analysis view if you click on the Stage button in the Dimensions tab and then on a position in the image. The stage is displayed as a red crosshair. This allows you to move your stage to particular points of interest which your analysis detected but would have been very hard to identify in the original image in the 2D view.

CAUTION

caution

Risk of Crushing Fingers

The drive of a microscope stage with a motorized horizontal stage axis (stage drive) is strong enough to crush fingers or objects between the stage and nearby objects (e.g. a wall).

  1. Remove your fingers or any objects from the danger area before moving the stage drive.
  2. Release the joystick immediately to stop the movement.

Analysis Tab

On the Analysis tab you can define how the measured objects are displayed in an image.

Parameter

Description

Show Objects

Activated: Displays the measured objects in the graphics plane.

Fill

Activated: Displays the objects in filled form.

Deactivated: Displays only the contours of the objects.

Opacity

Here you can set the opacity with which the measured objects are displayed in the graphics plane.

Delete Measurement Data

Deletes all objects and measurement data from the image.

Show All Classes

Activated: Displays the objects of all classes.

Deactivated: Displays the objects of the selected class.

Create Table(s)

Creates data tables

-

<Classname>

Create data table for selected class.

-

All classes (separately)

Create individual data tables for all classes.

-

All class/classes (concatenated)

Create concatenated data tables for all class/classes.

Classes section

In the classes section, you can select the class for which the measurement features should be displayed in the data table. For each class there are two entries: the first entry concerns all the objects belonging to the class (field features) and the second represents an individual object (object features).

Segmentation

Only visible, if you have executed an object classification.
Displays the initial segmentation results from the image analysis (see description for the classes section above).

Object Classification

Only visible, if you have executed an object classification (see Using an Intellesis Object Classification Model for Image Processing).
Displays a table with the predicted objects for a specific class.

Chart Export Tab

Here you can export the currently displayed custom chart as an image (with the file format PNG, TIF, BMP, or JPG).

Parameter

Description

Screen Resolution (96ppi)

Exports the chart with a resolution suitable for screens.

Printing Resolution (300ppi)

Exports the chart with a resolution suitable for printing.

Width (inch)

Adjusts and displays the width.

Height (inch)

Adjusts and displays the height.

Maintain aspect ratio

Activated: If height or width is changed, the other parameter is changed automatically to maintain the aspect ratio.

Deactivated: Height and/or width can be changed without an automatic adjustment of the other parameter. The aspect ratio is not maintained.

Transparent Background

Activated: The chart is exported with a transparent background. Possible file formats for this kind of export are PNG and TIF.

Export

Opens a dialog to select the folder and path for export.

Export Data

Available for histogram charts and the heatmap.

Exports the data of the histogram or the heatmap as a *.csv file.

Sample Carrier Tab

On this tab you select the data which is shown in the multiple scenes chart of the Analysis view. Filled wells which contain objects (images) are displayed in yellow color, unfilled/ empty wells are transparent.

Table Export Tab

This tab allows you to export the currently opened table. The table is exported in csv format.

Parameter

Description

Export Table

Opens an explorer to select the location for export.

Custom Chart tab

You can display a histogram or visualize the relationship between two quantitative variables by scatter chart and adapt the zoom factor to optimize the display. Draw a rectangle into the histogram/scatter chart to zoom in. Double click into the histogram/scatter chart to zoom out.

Parameter

Description

Enable chart

Activated: Displays the chart in the Analysis View.

Deactivated: Displays no chart in the Analysis View. Deactivates all controls described below to edit the chart.

Chart Type

 

Scatter Chart

Displays a 2D scatter chart in the Analysis View.

Histogram Chart

Displays a histogram in the Analysis View.

X-Axis

Selects the feature that is displayed on the x-axis of the chart.
The elements displayed in the dropdown menu depend on the previously defined measurement features in the image analysis setting.

Y-Axis

Only available for the scatter chart.

Selects the feature that is displayed on the y-axis of the chart. The elements displayed in the dropdown menu depend on the previously defined measurement features in the image analysis setting.

Histogram Bin Count

Only available for the histogram chart.

Creates the amount of bins to be displayed.

Adapt Zoom Factor

Activated: Automatically zooms the chart when selecting items from the data table or the image.

Multiple Scenes

Only available for multi-scene images.

Activated: Displays a histogram/ scatter chart that contains the data points from all scenes.
Deselect to go back to single-scene results.

Time Series

Only available for time series images.

Activated: Displays the analysis results of the selected class in a time series chart.

Heatmap

Only available for experiments with multi well/multi chamber plates.

Activated: Displays a heatmap of the well plate.

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