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Assemblathon 1: A competitive assessment of de novo short read assembly methods

  • Dent Earl
  • Keith Bradnam
  • John St. John
  • Aaron Darling
  • Dawei Lin
  • Joseph Fass Hung On Ken Yu Vince Buffalo Daniel R. Zerbino Mark Diekhans Ngan Nguyen Pramila Nuwantha Ariyaratne Wing-Kin Sung Zemin Ning Matthias Haimel Jared T. Simpson Nuno A. Fonseca İnanç Birol T. Roderick Docking Isaac Y. Ho Daniel S. Rokhsar Rayan Chikhi Dominique Lavenier Guillaume Chapuis Delphine Naquin Nicolas Maillet Michael C. Schatz David R. Kelley Adam M. Phillippy Sergey Koren Shiaw-Pyng Yang Wei Wu Wen-Chi Chou Anuj Srivastava Timothy I. Shaw J. Graham Ruby Peter Skewes-Cox Miguel Betegon Michelle T. Dimon Victor Solovyev Igor Seledtsov Petr Kosarev Denis Vorobyev Ricardo Ramirez-Gonzalez Richard Leggett Dan MacLean Fangfang Xia Ruibang Luo Zhenyu Li Yinlong Xie Binghang Liu Sante Gnerre Iain MacCallum Dariusz Przybylski Filipe J. Ribeiro Shuangye Yin Ted Sharpe Giles Hall Paul J. Kersey Richard Durbin Shaun D. Jackman Jarrod A. Chapman Xiaoqiu Huang Joseph L. DeRisi Mario Caccamo Yingrui Li David B. Jaffe
  • ... [+62 authors] ...,
  • Richard E. Green
  • David Haussler
  • Ian Korf
  • Benedict Paten
  • First Published September 16, 2011
Methods

Detecting heterozygosity in shotgun genome assemblies: Lessons from obligately outcrossing nematodes

  • Antoine Barrière
  • Shiaw-Pyng Yang
  • Elizabeth Pekarek
  • Cristel G. Thomas
  • Eric S. Haag
  • Ilya Ruvinsky
  • First Published February 9, 2009
Methods

Physical map-assisted whole-genome shotgun sequence assemblies

  • René L. Warren
  • Dmitry Varabei
  • Darren Platt
  • Xiaoqiu Huang
  • David Messina
  • Shiaw-Pyng Yang James W. Kronstad Martin Krzywinski Wesley C. Warren John W. Wallis LaDeana W. Hillier Asif T. Chinwalla Jacqueline E. Schein
  • ... [+8 authors] ...,
  • Asim S. Siddiqui
  • Marco A. Marra
  • Richard K. Wilson
  • Steven J.M. Jones
  • First Published June 1, 2006
Methods

PCAP: A Whole-Genome Assembly Program

  • Xiaoqiu Huang
  • Jianmin Wang
  • Srinivas Aluru
  • Shiaw-Pyng Yang
  • LaDeana Hillier
  • First Published September 2, 2003
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