Spremljaj
Yongchao Liu
Yongchao Liu
Staff Engineer, Ant Group (China)
Preverjeni e-poštni naslov na antgroup.com - Domača stran
Naslov
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Leto
CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units
Y Liu, D Maskell, B Schmidt
BMC Research Notes 2 (1), 73, 2009
3692009
Musket: a multistage k-mer spectrum-based error corrector for Illumina sequence data
Y Liu, J Schröder, B Schmidt
Bioinformatics 29 (3), 308-315, 2013
3432013
CUDASW++ 3.0: accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions
Y Liu, A Wirawan, B Schmidt
BMC Bioinformatics 14 (1), 117, 2013
3012013
MSAProbs: multiple sequence alignment based on pair hidden Markov models and partition function posterior probabilities
Y Liu, B Schmidt, DL Maskell
Bioinformatics 26 (16), 1958-1964, 2010
2862010
CUDASW++ 2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions
Y Liu, B Schmidt, D Maskell
BMC Research Notes 3 (1), 93, 2010
2682010
CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform
Y Liu, B Schmidt, DL Maskell
Bioinformatics 28 (14), 1830-1837, 2012
2242012
Long read alignment based on maximal exact match seeds
Y Liu, B Schmidt
Bioinformatics 28 (18), i318-i324, 2012
1382012
MSA-CUDA: multiple sequence alignment on graphics processing units with CUDA
Y Liu, B Schmidt, DL Maskell
20th IEEE International Conference on Application-specific Systems …, 2009
1202009
Parallelized short read assembly of large genomes using de Bruijn graphs
Y Liu, B Schmidt, D Maskell
BMC Bioinformatics 12 (1), 354, 2011
1072011
CUDA-MEME: accelerating motif discovery in biological sequences using CUDA-enabled graphics processing units
Y Liu, B Schmidt, W Liu, DL Maskell
Pattern Recognition Letters 31 (14), 2170-2177, 2010
1012010
CUSHAW2-GPU: empowering faster gapped short-read alignment using GPU computing
Y Liu, B Schmidt
IEEE Design & Test 31 (1), 31-39, 2013
952013
SWAPHI: Smith-Waterman protein database search on Xeon Phi coprocessors
Y Liu, B Schmidt
2014 IEEE 25th International Conference on Application-Specific Systems …, 2014
882014
DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI
Y Liu, B Schmidt, D Maskell
BMC Bioinformatics 12 (1), 85, 2011
852011
LightSpMV: faster CSR-based sparse matrix-vector multiplication on CUDA-enabled GPUs
Y Liu, B Schmidt
2015 IEEE 26th International Conference on Application-specific Systems …, 2015
782015
CUSHAW3: sensitive and accurate base-space and color-space short-read alignment with hybrid seeding
Y Liu, B Popp, B Schmidt
PloS one 9 (1), e86869, 2014
782014
SWAPHI-LS: Smith-Waterman algorithm on Xeon Phi coprocessors for long DNA sequences
Y Liu, TT Tran, F Lauenroth, B Schmidt
2014 IEEE International Conference on Cluster Computing, 257-265, 2014
712014
All-Food-Seq (AFS): a quantifiable screen for species in biological samples by deep DNA sequencing
F Ripp, CF Krombholz, Y Liu, M Weber, A Schäfer, B Schmidt, R Köppel, ...
BMC Genomics 15 (1), 639, 2014
662014
CompleteMOTIFs: DNA motif discovery platform for transcription factor binding experiments
L Kuttippurathu, M Hsing, Y Liu, B Schmidt, DL Maskell, K Lee, A He, ...
Bioinformatics 27 (5), 715, 2011
632011
Graph Retrieval-Augmented Generation: A Survey
B Peng, Y Zhu, Y Liu, X Bo, H Shi, C Hong, Y Zhang, S Tang
arXiv preprint arXiv:2408.08921, 2024
622024
GSWABE: faster GPU‐accelerated sequence alignment with optimal alignment retrieval for short DNA sequences
Y Liu, B Schmidt
Concurrency and Computation: Practice and Experience 27 (4), 958-972, 2015
472015
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