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Vamp prior testing #4

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Hrovatin opened this issue May 30, 2023 · 0 comments

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Hrovatin commented May 30, 2023 •

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Things to check:
How pseudoinputs move accross epochs:

cross_system_integration/notebooks/tryout/xxjoint_vampprior.py

Line 765 in 58a3642

# ### VAMP - change of pseudoinputs over training

Things that may help integration:

Different proportions of 2 systems (e.g. if we have prior components only from one system this may force other to be closer)
Do prior components of the two systems migrate closer to each other during training?

Notes on analysis:

Would use only cell types that are well represented in both species
Balancing of N components per ct may be useful so that in all 3 settings (priors from both systems or one of the two systems) have same number of components per ct.

Notes on VAMP:

Takes as pseudoinputs real data (expression, covar) and embeds them to get prior components.
The pseudoinputs change during training, leading to their embed (prior components) also changing,

Hrovatin assigned moinfar

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