DNA Motif discovery that includes the discovery of flexible (long or gapped) motifs.

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Unfolded convolutional learning for motif discovery

Deep Unfolded Convolutional Dictionary Learning for motif discovery.

Using a population of profiles to approximate the real motifs

Generate simulated DNA sequences for regulatory genomics problems

Load fasta files that contain DNA strings and process it for other downstream tasks

Shuffle the string sequences such that the k-mer frequency is preserved in each string

Threshold and p-value computations for Position Weight Matrices