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Phased nanopore assembly with Shasta and modular graph phasing with GFAse.

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Title: Phased nanopore assembly with Shasta and modular graph phasing with GFAse.
Authors: Lorig-Roach R; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA; rlorigro@ucsc.edu pacarnev@ucsc.edu bpaten@ucsc.edu., Meredith M; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Monlong J; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Jain M; Department of Bioengineering, Department of Physics, Northeastern University, Boston, Massachusetts 02120, USA., Olsen HE; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., McNulty B; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Porubsky D; Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA., Montague TG; The Mortimer B. Zuckerman Mind Brain Behavior Institute, Department of Neuroscience, Columbia University, New York, New York 10027, USA.; Howard Hughes Medical Institute, Columbia University, New York, New York 10032, USA., Lucas JK; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Condon C; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Eizenga JM; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Juul S; Oxford Nanopore Technologies Incorporated, New York, New York 10013, USA., McKenzie SK; Oxford Nanopore Technologies Incorporated, New York, New York 10013, USA., Simmonds SE; Chan Zuckerberg Initiative Foundation, Redwood City, California 94063, USA., Park J; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Asri M; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Koren S; Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20894, USA., Eichler EE; Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA.; Howard Hughes Medical Institute, University of Washington, Seattle, Washington 98195, USA., Axel R; The Mortimer B. Zuckerman Mind Brain Behavior Institute, Department of Neuroscience, Columbia University, New York, New York 10027, USA.; Howard Hughes Medical Institute, Columbia University, New York, New York 10032, USA., Martin B; Chan Zuckerberg Initiative Foundation, Redwood City, California 94063, USA., Carnevali P; Chan Zuckerberg Initiative Foundation, Redwood City, California 94063, USA; rlorigro@ucsc.edu pacarnev@ucsc.edu bpaten@ucsc.edu., Miga KH; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA., Paten B; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA; rlorigro@ucsc.edu pacarnev@ucsc.edu bpaten@ucsc.edu.
Source: Genome research [Genome Res] 2024 Apr 25; Vol. 34 (3), pp. 454-468. Date of Electronic Publication: 2024 Apr 25.
Publication Type: Journal Article; Research Support, Non-U.S. Gov't; Research Support, N.I.H., Extramural
Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Electronic Cited Medium: Internet ISSN: 1549-5469 (Electronic) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: Phased nanopore assembly with Shasta and modular graph phasing with GFAse.
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  Data: <searchLink fieldCode="AU" term="%22Lorig-Roach+R%22">Lorig-Roach R</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA; rlorigro@ucsc.edu pacarnev@ucsc.edu bpaten@ucsc.edu.<br /><searchLink fieldCode="AU" term="%22Meredith+M%22">Meredith M</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Monlong+J%22">Monlong J</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Jain+M%22">Jain M</searchLink>; Department of Bioengineering, Department of Physics, Northeastern University, Boston, Massachusetts 02120, USA.<br /><searchLink fieldCode="AU" term="%22Olsen+HE%22">Olsen HE</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22McNulty+B%22">McNulty B</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Porubsky+D%22">Porubsky D</searchLink>; Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA.<br /><searchLink fieldCode="AU" term="%22Montague+TG%22">Montague TG</searchLink>; The Mortimer B. Zuckerman Mind Brain Behavior Institute, Department of Neuroscience, Columbia University, New York, New York 10027, USA.; Howard Hughes Medical Institute, Columbia University, New York, New York 10032, USA.<br /><searchLink fieldCode="AU" term="%22Lucas+JK%22">Lucas JK</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Condon+C%22">Condon C</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Eizenga+JM%22">Eizenga JM</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Juul+S%22">Juul S</searchLink>; Oxford Nanopore Technologies Incorporated, New York, New York 10013, USA.<br /><searchLink fieldCode="AU" term="%22McKenzie+SK%22">McKenzie SK</searchLink>; Oxford Nanopore Technologies Incorporated, New York, New York 10013, USA.<br /><searchLink fieldCode="AU" term="%22Simmonds+SE%22">Simmonds SE</searchLink>; Chan Zuckerberg Initiative Foundation, Redwood City, California 94063, USA.<br /><searchLink fieldCode="AU" term="%22Park+J%22">Park J</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Asri+M%22">Asri M</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Koren+S%22">Koren S</searchLink>; Genome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland 20894, USA.<br /><searchLink fieldCode="AU" term="%22Eichler+EE%22">Eichler EE</searchLink>; Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA.; Howard Hughes Medical Institute, University of Washington, Seattle, Washington 98195, USA.<br /><searchLink fieldCode="AU" term="%22Axel+R%22">Axel R</searchLink>; The Mortimer B. Zuckerman Mind Brain Behavior Institute, Department of Neuroscience, Columbia University, New York, New York 10027, USA.; Howard Hughes Medical Institute, Columbia University, New York, New York 10032, USA.<br /><searchLink fieldCode="AU" term="%22Martin+B%22">Martin B</searchLink>; Chan Zuckerberg Initiative Foundation, Redwood City, California 94063, USA.<br /><searchLink fieldCode="AU" term="%22Carnevali+P%22">Carnevali P</searchLink>; Chan Zuckerberg Initiative Foundation, Redwood City, California 94063, USA; rlorigro@ucsc.edu pacarnev@ucsc.edu bpaten@ucsc.edu.<br /><searchLink fieldCode="AU" term="%22Miga+KH%22">Miga KH</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA.<br /><searchLink fieldCode="AU" term="%22Paten+B%22">Paten B</searchLink>; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, California 95060, USA; rlorigro@ucsc.edu pacarnev@ucsc.edu bpaten@ucsc.edu.
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  Data: <searchLink fieldCode="JN" term="%229518021%22">Genome research</searchLink> [Genome Res] 2024 Apr 25; Vol. 34 (3), pp. 454-468. <i>Date of Electronic Publication: </i>2024 Apr 25.
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  Data: <i>Publisher: </i><searchLink fieldCode="PB" term="%22Cold+Spring+Harbor+Laboratory+Press%22">Cold Spring Harbor Laboratory Press </searchLink><i>Country of Publication: </i>United States <i>NLM ID: </i>9518021 <i>Publication Model: </i>Electronic <i>Cited Medium: </i>Internet <i>ISSN: </i>1549-5469 (Electronic) <i>Linking ISSN: </i><searchLink fieldCode="IS" term="%2210889051%22">10889051 </searchLink><i>NLM ISO Abbreviation: </i>Genome Res <i>Subsets: </i>MEDLINE
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