Infinicyt™: Flow Cytometry Software

Graphs

How to get a Parameter Band DotPlot?

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In the dialogue box of the New Diagram window, you will find the option to open a Parameter Band Dotplot. We can select as many different bands as parameters included in the data file desired to represent the events in a dot plot. Each band represents the expression of the parameter in those cells in the X axis and chronologic acquisition parameter in the Y axis.

New Diagram

By right-clicking in the middle of the new Parameter Band Dot Plot, go to “Diagram Configuration” menu and select “Axes Configuration”. Through this command the user may select the parameters and scale to visualize on each band of the new diagram.

How to do a Dot Plot

What is the automatic population separator (APS) diagram and what information can provide to the user?

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This graphic representation is an automatic separation of the events, where the software tries to distinguish as many cell clusters as possible. The parameter represented in these APS is the result of calculating the contribution of each parameter to the best separation of clusters.

APS

The aim of this representation is that the user is able to distinguish in these graphics as many different populations as possible (especially useful when working with a high number of parameters) for a further characterization of these populations in the conventional 2D graphics. See detailed information about APS diagrams in chapter 2 of the User’s Manual and several illustrative examples in the APS Tutorial available in the “Support” section of our web site: www.infinicyt.com.

What is a Box Plot Diagram?

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A Box Plot is an useful numerical data display through the “five-number summaries” (minimum value, lower quartile, median, upper quartile and maximum value).

Creating a Box Plot

When you choose a Box Plot as new graphic, the diagram will represent in the X axes all the populations visible in that moment in the population tree, and in the Y axes you can choose the parameter to represent.

• The box itself contains the middle 50% of the data. The upper edge (hinge) of the box indicates the 75th percentile of the data set (third quartile x.75), and the lower hinge indicates the 25th percentile (first quartile x.25).
• The line in the box indicates the median value of the data (x.50). Thus, if the variable is symmetrical, that line will be located in the centre of the box.
• The ends of the vertical lines or "whiskers" indicate the values that differ by more than 1.5 times the distance interquartile and are calculated by multiplying the distance interquartile (x.75 - X25) x 1.5.
• The points outside the ends of the whiskers are outliers and they can show in the diagram activating the option “Show extreme values” in the BoxPlot Configuration window.

Information about Box Plot diagrams in chapter 2 of the User’s Manual.

Box Plot Configuration

Can I copy the graphic representations and paste them in other applications?

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Yes, you can. Select the diagram to copy with the size and appearance of interest and use the command Ctrl+C to copy it, then you can paste (Ctrl+P) it in a different application such as Microsoft Power Point, Word, etc.

What options can I change in the appearance of the graphic representations?

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By right-clicking in the middle of each diagram, it appears a menu that allows you to change the dot plot into a density plot, select the populations to visualize, select the percentage of events displayed or configure the background of the diagram, initially shown in white colour.

Graph Options

You will find complete information about Diagrams menu options in chapter 2 of the User’s Manual.

How to change the appearance of the parameter label

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Label appearance can be changed in all types of diagrams by right-clicking in the middle of the diagram, and choosing Diagram Configuration / Legend and Scale Configuration.

Parameter Label

Another option to change label appearance is through the Profile Option/Configure/Diagrams (Manual Analysis Window toolbar). Change made through this way can be saved with the profile.

How to transform the SSC parameter?

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The software shows different options for the SSC parameter scale representation (Exp-SSC Low, Logical, Lineal and Logarithmic).

Configure SSC Parameter

If you click on Diagram Configuration menu of the Dot plot menu or in the Y axis, selecting Default EXP-SSC Low, a default mathematical transformation will be applied to the SSC parameter of your file to improve the separation between populations in the lower part of the SSC scale.

Another option is Configurable EXP-SSC. This option gives the possibility to expand the SSC-parameter with the values desired by the user. When clicking on it, the SSC plot will appear with two scrolls in the lower part of the graph to regulate the part of the scale you want to amplify. When we had modified these values we selected OK and the SSC parameter will be change.

Expand the SSC-parameter

In order to show again the original values of SSC we click on Reset option.

What is a reference image?

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 From version 1.2 of Infinicyt™, it is possible to save pictures of the diagrams which can be used as a reference in similar data files to analyze later. This reference pictures appear in the same dot plot you are analyzing, so you can always have the reference image to compare with the current file. See detailed information about reference images in chapter 2 of the User’s Manual and several illustrative examples in the tutorial “Reference Image” available in our web site: www.infinicyt.com.

Reference Image

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