Basic gating functionality

[mbuttner]

The preprocessing of flow cytometry data essentially builds on thresholding for FSC, SSC, live-dead staining and the Singlet gate. A simple implementation of gating (e.g. rectangles and lines) would facilitate the basic pre-processing steps. More advances such as a Python implementation of FlowLearn would be amazing, too.

[burtonrj]

I've used ipywidgets for an unpublished manual gating solution inspired by @omerwe-eleventx expansion of CytoPy. I found this tutorial very helpful as well: https://kapernikov.com/ipywidgets-with-matplotlib/

I have an unpublished branch of CytoPy which contains a FlowLearn implementation: https://github.com/burtonrj/CytoPy/blob/v3.0/cytopy/gating/threshold.py - the DDTW class implements dynamic time warping as described in the FlowLearn paper but needs to be uncoupled from CytoPy's (admittedly chaotic) structure.

I'll get to work on this after I make PRs for clustering RE #49 #46

[quentinblampey]

Hello,
Maybe this can help : scyan.tools.PolygonGatingScatter
This is pretty basic, but it can be improved into a nice widget (right now, it opens a new window with the interactive plot)

Alternatively, there is jupyter scatter that is super nice. We could use it for lasso selections on scatter plots and UMAPs.
What do you think @mbuttner, @grst?