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Experience Migrating OpenCL to SYCL: A Case Study on Searches for Potential Off-Target Sites of Cas9 RNA-Guided Endonucleases on AMD GPUs

Zheming Jin, Jeffrey S. Vetter
Oak Ridge National Laboratory
36th IEEE International System-on-Chip Conference (SOCC), 2023

@inproceedings{jin2023experience,

   title={Experience Migrating OpenCL to SYCL: A Case Study on Searches for Potential Off-Target Sites of Cas9 RNA-Guided Endonucleases on AMD GPUs},

   author={Jin, Zheming and Vetter, Jeffrey S},

   booktitle={2023 IEEE 36th International System-on-Chip Conference (SOCC)},

   pages={1–6},

   year={2023},

   organization={IEEE}

}

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Cas-OFFinder is a popular application written in OpenCL for searching potential off-target sites in parallel on a GPU. In this work, we describe our experience of migrating the application from OpenCL to SYCL. Evaluating the performance of the OpenCL and SYCL application using human genome sequences shows that the SYCL program could achieve performance portability on the target GPUs. Exploring the optimizations of the hotspot kernel in SYCL may further improve the performance of the application by 9% to 23%.
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