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    Opportunity: Software Developer 2/3 -- Sequencing Technologies (#78446) @ DOE Joint Genome Institute -- Walnut Creek, CA (US)
    Submitted by Hannah Kuhns; posted on Thursday, April 24, 2014


    The DOE Joint Genome Institute in Walnut Creek, CA (a division of the Lawrence Berkeley National Lab) is searching for an experienced software developer. will be responsible for designing, developing and implementing scientific software solutions to manage, process and analyze data from new sequencing technologies. Will work on problems of a diverse scope, exercise independent judgment and select appropriate methods and techniques for solving and recommending automated/pipeline solutions. Assignments will span the full software development lifecycle, including participation in requirements gathering, implementation, testing, and deployment.

    The selected candidate will be hired as a Software Developer 2 or 3 depending on the candidate's level of skills and experience.

    Specific Job Duties:
    •  Design, implement, test and deploy bioinformatics software solutions for the handling of new sequencing technologies data with the eventual goal of integrating these systems with the institution's existing informatics infrastructure.
    •  Gather feedback and requirements to develop integrative software pipelines using a mix of the following: Java, Python, Perl, Perl/CGI, JavaScript, CVS, PL/SQL.
    •  Interact with peers to ensure efficient communication and completion of projects.
    •  Apply analytical skills and creativity to troubleshoot problems of a moderate scope.
    •  Stay current with new sequencing technologies.
    •  Develop and present updates and reports at group meetings.
    Essential Duties for the Software Developer 3 - In addition to the required duties for a level 2, the Software Developer 3 will:
    •  Work at a higher level of independence and responsibilities in carrying out assignments.
    •  Develop and implement substantial, known or novel, computational methods to improve the capabilities and output of the group.
    •  Troubleshoot more complex systems and data analysis problems.


    •  B.S. in Computer Engineering, Bioinformatics or a related field with a minimum of two years related experience, or an equivalent combination of education and experience. MS degree is preferred.
    •  Demonstrated experience with the following: Java and/or Perl, UNIX and SQL.
    •  Demonstrated experience with database programming and interfaces.
    •  Full life-cycle software development experience with the ability to work with scientific and administrative peers to define needs and priorities.
    •  Ability to effectively learn and apply new technology concepts to troubleshoot and solve problems and challenges of a diverse scope.
    •  Effective time management, organization, and planning skills.
    •  Talent for working well under short deadlines and handling multiple tasks simultaneously.
    •  Ability to work effectively in a diverse team environment.
    •  Demonstrated experience in providing support for software solutions.
    •  Experience developing web-based GUIs.
    •  Experience working with scientific users.
    •  Experience working with bioinformatics tools and/or analysis techniques, ideally involving next-generation sequencing platforms.
    Essential Qualifications for the Software Developer 3 - In addition to the required qualifications for the Software Developer 2, the Software Developer 3 will have:
    •  B.S. in Computer Engineering, Bioinformatics or a related field with a minimum of five years related experience, or an equivalent combination of education and experience. MS degree is preferred.
    •  Demonstrated expertise processing large volumes of data, whole-genome data analysis, and comparative genomics.
    •  Ability to troubleshoot complex systems and data analysis problems.


    This is a 1 year term appointment with the possibility of renewal and with the possibility of conversion to career based upon satisfactory job performance, continuing availability of funds, and ongoing operational needs. Work will be performed at the DOE Joint Genome Institute (JGI) in Walnut Creek, CA. Job may require occasional travel, weekend, and after-hours work. Detailed information about the Joint Genome Institute program can be found on the World Wide Web at the following location:


    Apply directly online at and follow the on-line instructions to complete the application process.

    Organization: GN-Genomics


    Berkeley Lab is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, age or protected veteran status.

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