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Research Article

SHRiMP: Accurate Mapping of Short Color-space Reads

  • Stephen M. Rumble,

    Affiliations: Department of Computer Science, University of Toronto, Toronto, Ontario, Canada, Department of Computer Science, Stanford University, Stanford, California, United States of America

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  • Phil Lacroute,

    Affiliations: Department of Genetics, Stanford University, Stanford, California, United States of America, Department of Pathology, Stanford University, Stanford, California, United States of America

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  • Adrian V. Dalca,

    Affiliation: Department of Computer Science, University of Toronto, Toronto, Ontario, Canada

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  • Marc Fiume,

    Affiliation: Department of Computer Science, University of Toronto, Toronto, Ontario, Canada

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  • Arend Sidow,

    Affiliations: Department of Genetics, Stanford University, Stanford, California, United States of America, Department of Pathology, Stanford University, Stanford, California, United States of America

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  • Michael Brudno mail

    brudno@cs.toronto.edu

    Affiliations: Department of Computer Science, University of Toronto, Toronto, Ontario, Canada, Banting & Best Department of Medical Research, University of Toronto, Toronto, Ontario, Canada

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  • Published: May 22, 2009
  • DOI: 10.1371/journal.pcbi.1000386

About the Authors

Stephen M. Rumble, Adrian V. Dalca, Marc Fiume, Michael Brudno
Department of Computer Science, University of Toronto, Toronto, Ontario, Canada
Stephen M. Rumble
Department of Computer Science, Stanford University, Stanford, California, United States of America
Phil Lacroute, Arend Sidow
Department of Genetics, Stanford University, Stanford, California, United States of America
Phil Lacroute, Arend Sidow
Department of Pathology, Stanford University, Stanford, California, United States of America
Michael Brudno
Banting & Best Department of Medical Research, University of Toronto, Toronto, Ontario, Canada

Corresponding Author

Email: brudno@cs.toronto.edu

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: SMR PL AS MB. Performed the experiments: SMR PL AVD MF. Analyzed the data: SMR PL AVD MF AS MB. Contributed reagents/materials/analysis tools: AS. Wrote the paper: SMR PL AVD MF AS MB.