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Summary: Human alpha satellite and satellite 2/3 contribute to severalpercent of the human genome. However, identifying these sequences withtraditional algorithms is computationally intensive. Here we develop dna-brnn,a recurrent neural network to learn the sequences of the two classes ofcentromeric repeats. It achieves high similarity to RepeatMasker and is timesfaster. Dna-brnn explores a novel application of deep learning and mayaccelerate the study of the evolution of the two repeat classes.  Availability and implementation: https://github.com/lh3/dna-nn  Contact: hli@jimmy.harvard.edu

Identifying centromeric satellites with dna-brnn