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arxiv 2012.12124 v2 pith:EG2CNBIS submitted 2020-12-16 physics.chem-ph cs.LG

Non-autoregressive electron flow generation for reaction prediction

classification physics.chem-ph cs.LG
keywords reactionoutputseditselectrongenerategeneratinggraphinference
verification ladder T0 review T1 audit T2 compute T3 formal T4 reserved
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Reaction prediction is a fundamental problem in computational chemistry. Existing approaches typically generate a chemical reaction by sampling tokens or graph edits sequentially, conditioning on previously generated outputs. These autoregressive generating methods impose an arbitrary ordering of outputs and prevent parallel decoding during inference. We devise a novel decoder that avoids such sequential generating and predicts the reaction in a Non-Autoregressive manner. Inspired by physical-chemistry insights, we represent edge edits in a molecule graph as electron flows, which can then be predicted in parallel. To capture the uncertainty of reactions, we introduce latent variables to generate multi-modal outputs. Following previous works, we evaluate our model on USPTO MIT dataset. Our model achieves both an order of magnitude lower inference latency, with state-of-the-art top-1 accuracy and comparable performance on Top-K sampling.

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