Vitalii Kleshchevnikov

This is the function (it is a bit hidden in code): https://github.com/BayraktarLab/cell2location/blob/a35d0ade4ad921b1952635c318c3553149009cad/cell2location/plt/mapping_video.py#L109

The simplest extension would be to use continuous variables to define alpha without providing support for multiple colours. Multiple colours need to be selected manually and interpolated in a way...

I also find this proposal useful for two reasons: 1. Handling multimodal data in scvi-tools. 2. I find that most collaborators don't store the raw integer counts for all genes...

Thank you @ricomnl ! I will read that paper. One common issue is assuming that the background RNA constitute the same proportion rather than the same absolute number. This is...

@adamgayoso As we discussed elsewhere, the reason I created an issue rather than scverse discussion is that I think this is a very concrete implementable suggestion. However, I need some...

Yes, exactly like @jamestwebber described - we need a way to sample both the global variables and the local variables (including amortised variables). The idea is that by doing predictive...

I defined a method `_posterior_samples_minibatch ` for doing this for scRNA-seq models in a recent PR to scVI: https://github.com/YosefLab/scvi-tools/blob/b020ff5fef9248df17f07d7ed1a6f794d8f7673e/scvi/model/base/_pyromixin.py#L262-L351 It uses poutine to generate samples one by one and is...

Looks like accidentally included changes to `AutoGuideList` from PR #2837 (still learning how to use git correctly).

What is missing at the moment is a simple encoder NN class. @fritzo @martinjankowiak is there anything already defined in pyro or a good example?

I started thinking about tests and realised that this testing class also needs a model with local variables and some data. @fritzo do you have any good example in mind...