HelenaLC / CATALYST

Cytometry dATa anALYsis Tools
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Compensation #386

Closed PhillipSsekamatte closed 9 months ago

PhillipSsekamatte commented 9 months ago

Dear Helena, How would you perform compensation of flow cytometry datasets using CATALYST?

HelenaLC commented 9 months ago

You wouldn’t. The package was originally developed for CyTOF data. While most visualizations and analyses are applicable to FACS, the compensation procedure is not, as it relies on single-stained beads for spillover and background signal estimation. I’d suggest looking into the flowCore package instead, which is a long-standing framework for FACS analysis in R.