Hi,

I am using openCyto for the analysis of my flow data. In general my script works already very nice. Short summary: I start by loading my ncdfFlowSet, transform and normalize the data, load my gating-template "gt"(.csv) and perform the automated gating like in the manual of openCyto.

gs <- GatingSet(ncdf_trans_norm)
gating(gt, gs, mc.cores=10, parallel_type = "multicore")

Now, I can display my plot hierarchy and plot gates for my populations .However, for the next analysis steps I want to do some comparisons and I would like to get MFIs (mean fluorescence intensities) from the channels per population. How can I do this?

Since I have no idea left I would really appreciate your help, even if it’s only a short idea what to try next.

Thank you in advance,

Veronika Rudolf

Try this:

library(QUALIFIER)

res <- lapply(gs, getQAStats, isMFI = TRUE)