Dynamic Programming Accelerator
[1-1] C. Y. Chang, Y. C. Li, N. C. Chen, X. X. Huang, and Y. C. Lu, "A special processor design for nucleotide Basic Local Alignment Search Tool with a new banded two-hit method," in 2016 IEEE Nordic Circuits and Systems Conference, 2016, pp. 1-5.[1-2] M. J. Lin, C. Y. Chang, Y. C. Li, N. C. Chen, and Y. C. Lu, "A hybrid flow for multiple sequence alignment with a BLASTn based pairwise alignment processor," in 2018 IEEE International Symposium on Circuits and Systems, 2018, pp. 1-5.[1-3] Y. L. Liao, Y. C. Li, N. C. Chen, and Y. C. Lu, "Adaptively banded Smith-Waterman algorithm for long reads and its hardware accelerator," in 2018 IEEE International Conference on Application-specific Systems, Architectures and Processors, 2018, pp. 1-9.[1-4] R. T. Chien, Y. L. Liao, C. A. Wang, Y. C. Li, and Y. C. Lu, "Three-dimensional dynamic programming accelerator for multiple sequence alignment," in 2018 IEEE Nordic Circuits and Systems Conference, 2018, pp. 1-5.
Index Calculators/Liquid Association Calculators
[2-1] N. C. Chen, T. Y. Chiu, Y. C. Li, Y. C. Chien, and Y. C. Lu, "Power efficient special processor design for burrows-wheeler-transform-based short read sequence alignment," in 2015 IEEE Biomedical Circuits and Systems Conference, 2015, pp. 1-4.[2-2] C. A. Wang, S. J. Huang, Y. C. Li, and Y. C. Lu, "An FPGA-based liquid association calculator for genome-wide co-expression analysis," in 2018 IEEE International Conference on Digital Signal Processing, 2018.
Hardware Filter and De Novo Assembler
[3-1] Y. H. Kuo, C. S. Liu, Y. C. Li, and Y. C. Lu, "Parallel architecture and hardware implementation of pre-processor and post-processor for sequence assembly," in 2013 IEEE International Conference on Acoustics, Speech and Signal Processing, 2013, pp. 1158-1161.[3-2] Y. L. Huang, C. S. Liu, Y. C. Li, and Y. C. Lu, "Architecture and circuit design of parallel processing elements for de novo sequence assembly," in 2013 IEEE International SOC Conference, 2013, pp. 50-54.[3-3] C. S. Liu, N. C. Chen, Y. C. Li, and Y. C. Lu, "An FPGA-based quality filter for de novo sequence assembly pipeline," in 2016 IEEE Asia Pacific Conference on Circuits and Systems, 2016, pp. 139-142.
Fluorescence Data Processing
[4-1] X. X. Huang, C. H. Ho, Y. C. Li, N. C. Chen, and Y. C. Lu, "Step shift: a fast image segmentation algorithm and its hardware implementation for next-generation sequencing fluorescence data," in 2016 IEEE Asia Pacific Conference on Circuits and Systems, 2016, pp. 202-205.