Is your feature request related to a problem? Please describe.
It's standard to need a 'gating strategy' visualization figure that depicts each gate with arrows showing subpopulations and subgates. This is typically generated by hand. Example (not mine):
Describe the solution you'd like
I think it would be awesome if we could read a FlowJo workspace with handcrafted gating (I always gate by hand in FlowJo and analyze the data with FlowKit), and automatically generate the 'graph of figures' gating strategy representation. Basically traverse the gating tree and assemble plots, ideally even adding arrows like in my example. User could specify which sample they want to plot the gating strategy for.
Describe alternatives you've considered
This could be done by hand, either in FlowJo or by manually thinking through the gate relationships. I think an MVP here would simply include each gate and a title explaining its relation to parent gates.
Open to thoughts. I suspect someone might have a solution, so thought I'd post here before trying to implement myself. Cheers!
Partially for my own later reference, the following docs seem relevant –
Is your feature request related to a problem? Please describe.
It's standard to need a 'gating strategy' visualization figure that depicts each gate with arrows showing subpopulations and subgates. This is typically generated by hand. Example (not mine):
Describe the solution you'd like
I think it would be awesome if we could read a FlowJo workspace with handcrafted gating (I always gate by hand in FlowJo and analyze the data with FlowKit), and automatically generate the 'graph of figures' gating strategy representation. Basically traverse the gating tree and assemble plots, ideally even adding arrows like in my example. User could specify which sample they want to plot the gating strategy for.
Describe alternatives you've considered
This could be done by hand, either in FlowJo or by manually thinking through the gate relationships. I think an MVP here would simply include each gate and a title explaining its relation to parent gates.
Open to thoughts. I suspect someone might have a solution, so thought I'd post here before trying to implement myself. Cheers!
Partially for my own later reference, the following docs seem relevant –
https://flowkit.readthedocs.io/en/latest/notebooks/advanced/replicate-flowjo-wsp.html
This one even contains a graphviz based plot of the gating strategy: https://github.com/whitews/FlowKit/blob/master/docs/notebooks/flowkit-tutorial-part03-gating-strategy-and-gating-results-classes.ipynb