CiMBA: Accelerating Genome Sequencing Through On-Device Basecalling via Compute-in-Memory

Apr 9, 2025 by W. Simon, I. Boybat, Riselda Kodra, E. Ferro, Gagandeep Singh, M. Alser, Shubham Jain, H. Tsai, Geoffrey W. Burr, O. Mutlu, A. Sebastian (IEEE Transactions on Parallel and Distributed Systems)

DOI 10.1109/TPDS.2025.3550811

We built CiMBA, a tiny compute-in-memory accelerator plus an analog-friendly DNN family called AnaLog-Dorado, to run real-time on-device basecalling and crush the data deluge from portable sequencers. The co-design slashes comms and storage needs while delivering massive throughput and power/area wins over prior embedded accelerators, all without sacrificing state-of-the-art accuracy.

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