Hi all,

I currently have an interesting dataset of two combined single cell experiments, a large droplet based one , and a smaller index sorted plate based experiment. Combining the data ended up aligning things surprisingly well, and I now have biologically interesting clusters with transciptomic data and with a few of the cells having protein florescence too. My goal is to be able to say , " if you searched for the cells in this cluster using FACS, this is how/where you would find it"

Im struggling however to imagine a meaningful way to visualise this message. As you probably know, the florescent data in flow is is visualised by the user after running through sequential "gates" of user defined areas on a scatter plot of fluorophore A vs fluorophore B. This critical facet of the workflow fact isnt recapitulated in my raw data , so a ridge-plot of florescent intensities shows simply normally distributed intensities, mostly much the same as each other. Im dreaming about some sort of decision tree based graphic but cant nail down what that would look like IRL. Ive been mulling this one over for a few weeks and am spinning my wheels now.

Has anyone any experience doing anything like this?

Any papers/pictures to recommend?

Any other misc thoughts?

Thanks.