Therefore, a copy must be created in FlowJo that can be edited.Ģ) Click “Edit” to make a new (live) matrix and modify any of the matrix spillover values.ģ) A drop- down menu will then ask you if you would like to continue editing the acquisition matrix, click “Yes”.Ī new matrix will be created and immediately applied to all samples in the workspace. Acquisition matrices are usually grey by default.ĭouble-clicking the grid opens the matrix editor :įlowJo does not allow direct editing of the acquisition matrix to maintain the integrity of the FCS standard since these compensation values are stored within the file. If this gird appears when the data are first loaded, this means there is a compensation matrix embedded in the file and FlowJo has applied it. The color grid indicates that a compensation matrix has been applied to the sample. To alter an acquisition matrix on a file, please follow these steps:ġ) Double click on the grid next to the sample. You can also create an entirely new matrix with parameters of your choosing (See “Creating a New Matrix File” below). You can duplicate an existing matrix, which first must be edited and then applied to samples in the workspace.Any changes to spillover values are immediately applied to your samples in the workspace. You can edit an existing matrix, which creates a copy of the existing acquisition matrix and a live compensation node in the workspace.The two differ as to how they are applied to samples in the workspace. There are two of different ways in FlowJo vX to alter spillover values in an existing acquisition matrix. Good compensation matrices are derived from good compensation controls! Visual manipulations will likely only introduce error in the compensation calculation. Please Note: Altering these spillover values is not recommended unless it is done empirically. They are read and applied by FlowJo to the files automatically when the files are loaded. Chapter 1 – Editing Acquisition-Defined Compensation Matrices CHAPTER 1 – Altering an acquisition matrixĪcquisition matrices are defined by the $SPILL or $COMP keyword embedded within the fcs files.
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