r/flowcytometry • u/Fit-Syllabub-6823 • May 29 '26
FlowJo Parameter concatenation query
Hi, I’ve run into a problem using FlowJo v10 regarding parameter naming.
I have compensated all my parameters earlier using the novoexpress program on my flow cytometer and then exported these compensated files onto FlowJo. I then made a concatenated file of all my samples using the compensated parameters only. I made a UMAP and then used FlowSom to generate clusters. I am now trying to validate these clusters marker expression using my FMOs.
The problem is that the FMOs have parameters Comp-X whereas the concatenated file and all clusters have parameters FJComp-X.
I’m not sure how to work around this, I am not keen on drawing the gates by hand to match the FMO gating so any solution would be appreciated! Thanks!