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SOAP2: an improved ultrafast tool for short read alignment.
Li R, Yu C, Li Y, Lam TW, Yiu SM, Kristiansen K, Wang J. Li R, et al. Among authors: li y. Bioinformatics. 2009 Aug 1;25(15):1966-7. doi: 10.1093/bioinformatics/btp336. Epub 2009 Jun 3. Bioinformatics. 2009. PMID: 19497933
SOAP3: ultra-fast GPU-based parallel alignment tool for short reads.
Liu CM, Wong T, Wu E, Luo R, Yiu SM, Li Y, Wang B, Yu C, Chu X, Zhao K, Li R, Lam TW. Liu CM, et al. Among authors: li y, li r. Bioinformatics. 2012 Mar 15;28(6):878-9. doi: 10.1093/bioinformatics/bts061. Epub 2012 Jan 28. Bioinformatics. 2012. PMID: 22285832
SOAP3-dp: fast, accurate and sensitive GPU-based short read aligner.
Luo R, Wong T, Zhu J, Liu CM, Zhu X, Wu E, Lee LK, Lin H, Zhu W, Cheung DW, Ting HF, Yiu SM, Peng S, Yu C, Li Y, Li R, Lam TW. Luo R, et al. Among authors: li y, li r. PLoS One. 2013 May 31;8(5):e65632. doi: 10.1371/journal.pone.0065632. Print 2013. PLoS One. 2013. PMID: 23741504 Free PMC article.
SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads.
Xie Y, Wu G, Tang J, Luo R, Patterson J, Liu S, Huang W, He G, Gu S, Li S, Zhou X, Lam TW, Li Y, Xu X, Wong GK, Wang J. Xie Y, et al. Among authors: li s, li y. Bioinformatics. 2014 Jun 15;30(12):1660-6. doi: 10.1093/bioinformatics/btu077. Epub 2014 Feb 13. Bioinformatics. 2014. PMID: 24532719
SOAP: short oligonucleotide alignment program.
Li R, Li Y, Kristiansen K, Wang J. Li R, et al. Among authors: li y. Bioinformatics. 2008 Mar 1;24(5):713-4. doi: 10.1093/bioinformatics/btn025. Epub 2008 Jan 28. Bioinformatics. 2008. PMID: 18227114 Free article.
Faster human genome sequencing.
Li Y, Wang J. Li Y, et al. Nat Biotechnol. 2009 Sep;27(9):820-1. doi: 10.1038/nbt0909-820. Nat Biotechnol. 2009. PMID: 19741637 No abstract available.
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler.
Luo R, Liu B, Xie Y, Li Z, Huang W, Yuan J, He G, Chen Y, Pan Q, Liu Y, Tang J, Wu G, Zhang H, Shi Y, Liu Y, Yu C, Wang B, Lu Y, Han C, Cheung DW, Yiu SM, Peng S, Xiaoqian Z, Liu G, Liao X, Li Y, Yang H, Wang J, Lam TW, Wang J. Luo R, et al. Among authors: li y, li z. Gigascience. 2012 Dec 27;1(1):18. doi: 10.1186/2047-217X-1-18. Gigascience. 2012. PMID: 23587118 Free PMC article.
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