Ben Perach

Marcel Khalifa, Barak Hoffer, Orian Leitersdorf et al.

DNA sequence classification is a fundamental task in computational biology with vast implications for applications such as disease prevention and drug design. Therefore, fast high-quality sequence classifiers are significantly important. This paper introduces ClaPIM, a scalable DNA sequence classification architecture based on the emerging concept of hybrid in-crossbar and near-crossbar memristive processing-in-memory (PIM). We enable efficient and high-quality classification by uniting the filter and search stages within a single algorithm. Specifically, we propose a custom filtering technique that drastically narrows the search space and a search approach that facilitates approximate string matching through a distance function. ClaPIM is the first PIM architecture for scalable approximate string matching that benefits from the high density of memristive crossbar arrays and the massive computational parallelism of PIM. Compared with Kraken2, a state-of-the-art software classifier, ClaPIM provides significantly higher classification quality (up to 20x improvement in F1 score) and also demonstrates a 1.8x throughput improvement. Compared with EDAM, a recently-proposed SRAM-based accelerator that is restricted to small datasets, we observe both a 30.4x improvement in normalized throughput per area and a 7% increase in classification precision.

Tzofnat Greenberg Toledo, Ben Perach, Itay Hubara et al.

Quantized neural networks (QNNs) are being actively researched as a solution for the computational complexity and memory intensity of deep neural networks. This has sparked efforts to develop algorithms that support both inference and training with quantized weight and activation values, without sacrificing accuracy. A recent example is the GXNOR framework for stochastic training of ternary (TNN) and binary (BNN) neural networks. In this paper, we show how magnetic tunnel junction (MTJ) devices can be used to support QNN training. We introduce a novel hardware synapse circuit that uses the MTJ stochastic behavior to support the quantize update. The proposed circuit enables processing near memory (PNM) of QNN training, which subsequently reduces data movement. We simulated MTJ-based stochastic training of a TNN over the MNIST, SVHN, and CIFAR10 datasets and achieved an accuracy of 98.61%, 93.99% and 82.71%, respectively (less than 1% degradation compared to the GXNOR algorithm). We evaluated the synapse array performance potential and showed that the proposed synapse circuit can train ternary networks in situ, with 18.3TOPs/W for feedforward and 3TOPs/W for weight update.