Workflow from Scientific Research

The data augmentation procedure consists of an encoding stage and a decoding stage. In the encoding stage, the 2D expression pattern for each gene is summarized into the embeddings of mean and standard error vectors of a multivariate normal distribution. In the decoding stage, new embeddings are generated via the multivariate normal distribution given by the encoding stage. Meanwhile, a clustering algorithm is performed to cluster genes into groups. Finally, the generated embedding and the gene cluster embedding are concatenated, which is used as input for a convolutional neural network to decode the concatenated embedding into a 2D matrix with the same dimension as the gene expression input. The resulting 2D matrix can generate replicates of the ST data.

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