SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler-Reference-Cited by-同舟云学术

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

Published:2012-12 Issue:1 Volume:1 Page:
ISSN:2047-217X
Container-title:GigaScience
language:en
Short-container-title:GigaSci

Author:

Luo Ruibang,Liu Binghang,Xie Yinlong,Li Zhenyu,Huang Weihua,Yuan Jianying,He Guangzhu,Chen Yanxiang,Pan Qi,Liu Yunjie,Tang Jingbo,Wu Gengxiong,Zhang Hao,Shi Yujian,Liu Yong,Yu Chang,Wang Bo,Lu Yao,Han Changlei,Cheung David W,Yiu Siu-Ming,Peng Shaoliang,Xiaoqian Zhu,Liu Guangming,Liao Xiangke,Li Yingrui,Yang Huanming,Wang Jian,Lam Tak-Wah,Wang Jun

Publisher

Oxford University Press (OUP)

Subject

Computer Science Applications,Health Informatics

Link

http://link.springer.com/content/pdf/10.1186/2047-217X-1-18.pdf

Reference17 articles.

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2. Salzberg SL, Phillippy AM, Zimin A, Puiu D, Magoc T, Koren S, Treangen TJ, Schatz MC, Delcher AL, Roberts M, Marçais G, Pop M, Yorke JA: GAGE: a critical evaluation of genome assemblies and assembly algorithms. Genome Res. 2012, 22: 557-567. 10.1101/gr.131383.111.

3. Li R, Zhu H, Ruan J, Qian W, Fang X, Shi Z, Li Y, Li S, Shan G, Kristiansen K, Li S, Yang H, Wang J, Wang J: De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 2010, 20: 265-272. 10.1101/gr.097261.109.

4. Alkan C, Sajjadian S, Eichler EE: Limitations of next-generation genome sequence assembly. Nat Methods. 2011, 8: 61-65. 10.1038/nmeth.1527.

5. Gnerre S, Maccallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, Sharpe T, Hall G, Shea TP, Sykes S, Berlin AM, Aird D, Costello M, Daza R, Williams L, Nicol R, Gnirke A, Nusbaum C, Lander ES, Jaffe DB: High-quality draft assemblies of mammalian genomes from massively parallel sequence data. Proc Natl Acad Sci U S A. 2011, 108: 1513-1518. 10.1073/pnas.1017351108.

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