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Deep learning is making major breakthrough in several areas of bioinformatics. Anticipating that this will occur soon for the single-cell RNA-seq data analysis, we review newly published deep learning methods that help tackle computational challenges. Autoencoders are found to be the dominant approach. However, methods based on deep generative models such as generative adversarial networks (GANs) are also emerging in this area. Author summary: Single-cell RNA sequencing (scRNA-seq) and deepdoi:10.1007/s40484-019-0189-2 fatcat:36nk2crr6rcmtocexv3rjhddhi