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In the emerging field of DNA storage, data is encoded as DNA sequences andstored. The data is read out again by sequencing the stored DNA. Nanoporesequencing is a new sequencing technology that has many advantages over othermethods; in particular, it is cheap, portable, and can support longer reads.While several practical coding schemes have been developed for DNA storage withnanopore sequencing, the theory is not well understood. Towards that end, westudy a highly abstracted (deterministic) version of the nanopore sequencer,which highlights key features that make its analysis difficult. We developmethods and theory to understand the capacity of our abstracted model, and wepropose efficient coding schemes and algorithms.

On Coding for an Abstracted Nanopore Channel for DNA Storage