How to sample a certain number of events from each fcs file and then concatenate

[elensyri]

Hi there I am looking to concatenate some fcs files. I would like to select a certain number of events (randomly) from the fcs files so there is an equal representation from all the fcs files and then concatenate. Can this be done with this script? If not are you aware of an alternative that can do this? Many thanks. Eleni

[rbruggner]

No - I do not believe the concatenation script supports subsampling. The citrus.readFCSsetfunction does this but does not output concatenated FCS files.
https://github.com/nolanlab/citrus/blob/master/R/citrus.util.R

You could definitely combine the two?

[elensyri]

Hay thanks for the prompt reply.

That is a good idea. I was reading the code. A bit confused though I will load the fcs files in Citrus and at which point do I export them again on the code?? Then I assume I can import them in cytofCore for concatenation?