Neural Koopman autoencoder models have been shown to successfully build a latent embedding with linear dynamics for arbitrary dynamical systems, enabling strong performance in long-term time series forecasting. However, these models usually work in a deterministic setting, which does not allow the quantification of the uncertainty of their predictions. Thus, we propose the new Variational Augmented Invertible Koopman AutoEncoder (VAIKAE), in which the latent embedding follows a Gaussian distribution instead of being deterministic. A key property of the VAIKAE architecture is that it leverages normalizing flow models, enabling the use of likelihood computations in the state space of dynamical systems for training a model. We further propose new strategies for uncertainty-aware latent data assimilation with a trained VAIKAE model. The effectiveness of our methods is demonstrated in a series of experiments on long-term time series forecasting benchmarks.

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