flowUnmix

An R package to unmix flow cytometry data

Author: Christopher Hall, Babraham Institute, UK

https://www.babraham.ac.uk/science-services/flow-cytometry

I will add documentation later, but there are help files in R.

devtools::install_github("hally166/flowUnmix")
library(flowUnmix)
??flowUnmix

Basic usage:

#load data
controls_data<-read.flowSet(list.files('C:/Spectral unmixing Aurora/Reference Group', full.names=TRUE))
files2unmix<-read.flowSet(list.files("C:/Spectral unmixing Aurora/Group_001", full.names = TRUE, pattern = ".fcs"))
negative_control<-read.FCS('C:/Spectral unmixing Aurora/Unstained (Beads).fcs')

#run unmixing
flowUnmix(fs=files2unmix, cs=Control_Spectrums, unstainedctrl=negative_control, guessPop = TRUE, popCheck = TRUE)

guessPop needs an unstained control.

popCheck displays the spectral signature of the control.

If you want autofluorescence subtraction you can add an extra signifure to the controls.