Designed to meet the key challenges of systems biology (predicting and ultimately designing biological function), Arkin Lab Biodesign project integrates numerous biological datasets and analysis tools into a unified, extensible system that allows researchers to collaboratively generate and test hypotheses about biological functions. The project's long-term goal is to help researchers to understand how plants and microbes interact with and affect each other and environmental processes and how these interactions could be harnessed for sustainable bioenergy and environmental solutions.
We are seeking a talented and passionate Software Developer to design, develop, and install software solutions for computational biology applications. The successful candidate will be able to build high-quality, innovative and fully performing software in compliance with coding standards and technical design. In addition, the successful applicant will have opportunities to work on a wide range of software development tasks, including user interface design, data integration, database and software interface design, and high-performance computing and bioinformatic algorithm development. The candidates should also be comfortable working in a collaborative, team-oriented environment, especially using Agile approaches such as Scrum, Kanban or rapid application development. Candidates need to be self-starters who can operate independently, learn new material rapidly and be willing and/or able to develop as full stack and polyglot developers. This position will be filled at the Level 2 - Software Developer or Level 3 - Staff Software Developer, dependent upon experience.
Under limited direction, the Software Developer 2 will:
*Work on issues of diverse scope; may include working with other KBase members to implement software to meet stakeholder needs; working with users of the analysis software to ensure that their needs are being met as well as to test and debug applications.
*Prepare presentations and papers for internal use, conferences, and peer-reviewed publication.
*Maintain accurate documentation and source-code control for all work-product.
*Execute full lifecycle software development.
*Write well-designed, testable, efficient code.
*Produce specifications and determine operational feasibility.
*Integrate software components into a fully functional software system.
*Develop software verification plans and quality assurance procedures.
*Document and maintain software functionality.
*Tailor and deploy software tools, processes and metrics.
*Comply with project plans and industry standards.
In addition to the above, the Staff Software Developer (Level 3) responsibilities include:
*Independently exercises judgment in selecting methods, techniques, and evaluation criteria for obtaining results while coordinating with the PI and other members of group in designing, developing, and distributing software for genomic analysis, systems biology analysis including metabolism, analysis of microbial community structure and function, and sophisticated data analysis.
*Work on complex issues where analysis of situations or data requires in-depth evaluations of variable factors; will involve but not limited to defining software requirements and determining and coordinating the week-to-week direction of the work.
*Identify problems and recommend viable solutions to software and data management issues.
*Experience working on front end as well as back end software
*A minimum of 5 years of related experience with a Bachelor's Degree in Computer Science or Engineering; or 3 years related experience and a Master's Degree; or equivalent work experience.
*Experience with modern practices of open collaborative software development, including code review, the GitHub pull request model, etc.
*Experience in designing interactive applications.
*Demonstrated high analytical skills and programming skills (highest preference for Java or Python but open to C/C++).
*Familiarity with software engineering practices that include testing, documentation, source code management and release procedures.
*Demonstrated ability to work collaboratively with programmers, engineers, postdocs, graduate students, and undergraduates from diverse backgrounds.
*Excellent writing, interpersonal communication, and analytical skills.
In addition to the above, Staff Software Developer (Level 3) Required Qualifications:
*A minimum of 8 years of related experience with a Bachelor's degree in computer science or engineering; or 6 years of experience with a Master's degree; or equivalent experience.
*Prior substantial experience developing software in a research or technical field for scientific applications.
*Experience with cluster computing environments such as Amazon EC2 or Batch Execution environments such as found in high-performance computing clusters.
*Experience with NoSQL databases such as MongoDB, Lucene, SOLR or ElasticSearch.
*Front end design and/or development using JQuery, Single Page WebApp frameworks like AngularJS, visualization libraries such as D3.
*Extensive experience releasing stable, well-tested, robust software systems of substantial complexity.
*Proven ability to conduct business systems analysis, computer systems design, and development of complex computer systems using state-of-the-art technology and tools.
*Knowledge of tools and systems for building documentation as an integrated part of the software development cycle (Sphinx, JSDoc, Doxygen, etc).
*Experience with agile methodologies for software development.
Additional Desired Qualifications for the Software Developer (Level 2 & 3):
*Familiarity with Agile software practices (e.g., Scrum, Kanban).
*Experience in bioinformatics software design and engineering, mathematical analysis and comparative and functional genomics.
*Experience with developing applications to display/visualize scientific (preferably biological) data.
*Experience with scientific analysis tools such as Matlab, R, or Mathematica.
*Master's degree or higher in bioinformatics, computational biology, microbiology and bio- or chemical engineering discipline or a software related degree program.
Experience with Jupyter Notebook, Docker.
The posting shall remain open until the position is filled.
This is a full time, 1-year term appointment with the possibility of extension or conversion to Career appointment based upon satisfactory job performance, continuing availability of funds and ongoing operational needs.
Classification will depend upon the applicant's level of skills, knowledge, and abilities. (For dual postings - add this to the position summary at the end of the paragraph) This position will be filled at the Software Developer or Staff Software Developerlevel, dependent on experience.
Full-time, M-F, exempt (monthly paid) from overtime pay.
Salary is commensurate with experience.
This position may be subject to a background check. Any convictions will be evaluated to determine if they directly relate to the responsibilities and requirements of the position. Having a conviction history will not automatically disqualify an applicant from being considered for employment.
Work will be primarily performed attheUniversity of California, Berkeley, CA.
Berkeley Lab (LBNL) addresses the world's most urgent scientific challenges by advancing sustainable energy, protecting human health, creating new materials, and revealing the origin and fate of the universe. Founded in 1931, Berkeley Lab's scientific expertise has been recognized with 13 Nobel prizes. The University of California manages Berkeley Lab for the U.S. Department of Energy's Office of Science.
Equal Employment Opportunity: Berkeley Lab is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, or protected veteran status. Berkeley Lab is in compliance with the Pay Transparency Nondiscrimination Provision under 41 CFR 60-1.4. Click here to view the poster and supplement: "Equal Employment Opportunity is the Law."
Internal Number: 86407
About Lawrence Berkeley National Laboratory
In the world of science, Lawrence Berkeley National Laboratory (Berkeley Lab) is synonymous with excellence. Thirteen scientists associated with Berkeley Lab have won the Nobel Prize. Fifty-seven Lab scientists are members of the National Academy of Sciences (NAS), one of the highest honors for a scientist in the United States. Thirteen of our scientists have won the National Medal of Science, our nation's highest award for lifetime achievement in fields of scientific research. Eighteen of our engineers have been elected to the National Academy of Engineering, and three of our scientists have been elected into the Institute of Medicine. In addition, Berkeley Lab has trained thousands of university science and engineering students who are advancing technological innovations across the nation and around the world. Berkeley Lab is a member of the national laboratory system supported by the U.S. Department of Energy through its Office of Science. It is managed by the University of California (UC) and is charged with conducting unclassified research across a wide range of scientific disciplines. Located on a 200-acre site in the hills above the UC Berkeley campus that offers spectacular... views of the San Francisco Bay, Berkeley Lab employs approximately 4,200 scientists, engineers, support staff and students. Its budget for 2011 is $735 million, with an additional $101 million in funding from the American Recovery and Reinvestment Act, for a total of $836 million. A recent study estimates the Laboratory's overall economic impact through direct, indirect and induced spending on the nine counties that make up the San Francisco Bay Area to be nearly $700 million annually. The Lab was also responsible for creating 5,600 jobs locally and 12,000 nationally. The overall economic impact on the national economy is estimated at $1.6 billion a year. Technologies developed at Berkeley Lab have generated billions of dollars in revenues, and thousands of jobs. Savings as a result of Berkeley Lab developments in lighting and windows, and other energy-efficient technologies, have also been in the billions of dollars. Berkeley Lab was founded in 1931 by Ernest Orlando Lawrence, a UC Berkeley physicist who won the 1939 Nobel Prize in physics for his invention of the cyclotron, a circular particle accelerator that opened the door to high-energy physics. It was Lawrence's belief that scientific research is best done through teams of individuals with different fields of expertise, working together. His teamwork concept is a Berkeley Lab legacy that continues today.