ZEISS Knowledge Base

Charts and Tables of the Analysis View

The Analysis View shows different charts and tables depending on the analysis, the experiment, and the selected options in the Custom Chart tab. The axes of the charts are configured in the Custom Chart tab and the shown analysis results are always those of the class selected in the Analysis tab. An image of the charts can be exported with the Chart Export Tab. You can zoom into a chart by using the mouse wheel or drawing a zoom rectangle. To zoom out to the original view, double-click on the background of the plot.

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 on your keyboard and click on multiple object/data points.
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 on your keyboard and click on multiple rows/data points.
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 on your keyboard and click on multiple rows/objects.

Standard table and chart

As a standard, a table with all analysis results and a chart configured according to the input in the Custom Chart tab are shown besides the analyzed image.

Multiple Scenes chart

For experiments containing multiple scenes, the Analysis View offers a chart which shows the results of all or multiple scenes. To see this chart, activate the checkbox Multiple Scenes in the Custom Chart tab. You can customize the displayed results with the Sample Carrier tab. For more information, see Selecting Data for the Multiple Scenes Chart.

Time Series chart

For time series experiments, the Analysis View offers a chart and table which display the analysis results over time. To see this chart, activate the checkbox Time Series in the Custom Chart tab. You can use the slider (the blue box) to browse through the individual points in time, which highlights the respective data in the table, and vice versa.

Heatmap

For multi well or multi chamber experiments, the Analysis View offers a heatmap to display the measurement results on a well or chamber level. To see this map, activate the checkbox Heatmap in the Custom Chart tab.

Selecting Data for the Multiple Scenes Chart

In the Custom Chart tab, the Multiple Scenes checkbox must be activated.

Click on the Sample Carrier tab.
Select the desired well or scene. To select multiple wells or scenes, press Ctrl on your keyboard and click on the individual wells. Alternatively, select the desired wells with the pressed left mouse key. To select a specific region of wells, press Shift on your keyboard and click on the two wells which mark the corners of the region.

The chart displays the data of the selected wells or scenes.

Heatmap Calculation

The heatmap displayed in the Analysis View is calculated based on statistical features which you add in the Features step of the Image Analysis Wizard.
The statistical measurement is done on the basis of the top class objects of your analysis setting. Consider the following example:

To calculate, for example, the Mean Area of the Classes 1, the area of all Class 2 objects is summed up and then the total area is divided by the count of objects.

This table shows the offered statistical parameters and the calculation description:

Parameter	Description
Area	Calculates the total area of all objects found in a well or chamber.
Area Percentage	Calculates the percentage that the area of all objects has in respect to the whole frame area (area of all objects divided by the whole frame area).
Count	Calculates the count of objects.
Intensity Std	Calculates the intensity standard deviation divided by the number of objects. s_n = Number of the scenes in a well or chamber o_s = Number of objects found in the scene s x_i = Intensity standard deviation of the object i
Mean Intensity	Calculates the mean value of the mean of the intensity and divides it by the number all objects in all scenes. s_n = Number of the scenes in a well or chamber o_s = Number of objects found in the scene s x_i = Intensity mean value of the object i
Mean Area	Calculates the mean value of the mean of the area and divides it by the number of all objects in all scenes. s_n = Number of the scenes in a well or chamber o_s = Number of objects found in the scene s x_i = Mean area of the object i