Hi!

I'm experiencing issues while using the flowAI package in R.

When I use FCS files obtained directly from the LSRFortessa instrument, I have no problems with flowAI. However, when I try to use flowAI on FCS files exported from flowJo (for example: FCS files from which I extracted only B cell events), I encounter this error using the function flow_auto_qc:

>fs #fs is my flowSet object
A flowSet with 283 experiments.

column names(22): FSC-A FSC-H ... FJComp-PerCP-Cy5-5-A Time

>fs.ai<-flow_auto_qc(fs, remove_from = "FS_FM")
Quality control for the file: AAM_d7_CD19 +
'Error: cannot allocate vector of size 856.3 Gb.'

Do you know if there are compatibility issues between flowJo and flowAI?

I have also used the flowAI plugin in flowJo, using the latest versions of the plugin and flowAI and flowCore packages, and it has always worked fine. However, it doesn't work in R. Do you have any advice or suggestions? Thank you.

I am using these package versions: flowAI v1.30.0, flowCore v2.12.2, R version 4.3.1.