Our research has been supported by:
Affiliated Sites: Virginia Tech · SEEC · Synergy
Last updated: January 2016
Heuristic-based local sequence alignment on a NVIDIA GPU.
Heuristic-based local sequence alignment on a multicore Intel CPU.
A parallel implementation of NCBI BLAST, which uses database fragmentation, query segmentation, intelligent scheduling, and parallel I/O to achieve performance gains.
Compressive genomics approach to sequence search where each representative sequence serves as a "centroid" of similar sequences.
A parallel implementation of the Smith-Waterman algorithm on the Cell Broadband Engine platform.
GPU-based parallel implementation of the Needleman-Wunsch algorithm with optimizations for GPU synchronization.
Input-aware SIMD pairwise sequence alignment on multi/manycore processors.
Burrows-Wheeler Transform-based short read alignment on a multicore Intel CPU.
A parallel implementation of Dindel that exhibits 9-fold speedup.
A cloud-based version of genome analysis toolkit (GATK) that has been further accelerated via big data software technology (e.g., Hadoop) and algorithmic refactoring (e.g., loci-based).
A GPU-accelerated IndelRealigner.
Affiliated Sites: Virginia Tech · SEEC · Synergy
Last updated: January 2016