The extension for an individual compensation matrix in FCS Express is .compensation. This is the extension that is applied in an Assign this compensation to a data file or Export the selected compensation command from the Compensations command.

 

If FCS File or FCS File, then Compensation Default is specified as the default Option for loading compensations, when loading a list mode file, FCS express will look in the folder where the file is being loaded for a file with the same name, but ending in .compensation. For instance, if you are loading sample1.fcs then FCS Express will look for sample1.fcs.compensation. If it finds this file, it will load that matrix as if it was specified in the .fcs file itself.

 

If it does not find the specific compensation file, it will look for a file of the type *.allcompensation in the same folder as the data file. The individual matrix in the *.allcompensation  file will be applied to all of the files in that folder.

 

Note: If there are two or more *.allcompensation files in the same folder, e.g., type1.allcompensation and type2.allcompensation, the results cannot be predicted. In such a case, FCS Express will pick one randomly.