![]() As you can see from the picture below, the CD3-7AAD parameter and APC 647 require adjustment.ĥ) You can use the assignment text at the top of the window to clear sample assignments if they are incorrect. Green indicates a good match, yellow is less certain, and red indicates a poor or non-existent control file is associated the compensation parameter. A colored dot will appear next to the file name indicating the likelihood that FlowJo found the correct compensation file. An overview of this window is here.Ĥ) FlowJo will attempt to assign the correct samples to each parameter. Otherwise, the compensation interface will not process the controls correctly.ġ) To initiate creating a new compensation matrix in FlowJo, select the compensation group in the workspace and go to the Workspace ribbon.Ģ) Click the compensation icon in the Cytometry band of the Tools tab.ģ) The compensation interface will launch. Only put the controls necessary for creating that compensation matrix in this compensation matrix. One compensation group will yield one compensation matrix from the controls provided to that group. If you require multiple new compensation matrices, simply create a new group and assign it a role of ‘compensation’. There is a single compensation matrix in the workspace by default and it will allow you to create one new compensation matrix in FlowJo. Compensation controls (single stain samples) must now belong to a compensation group in order to create a compensation matrix with these controls. ![]() Chapter 2 – Creating a New Compensation Matrix in FlowJo CHAPTER 2 – Creating a FlowJo compensation matrix from single stain controlsīefore compensating data in FlowJo, be sure your parameters which require compensation are scaled correctly.Ĭompensation has been reworked for version 10.
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