Computational Science Developer II – Cold Spring Harbor Laboratory – Cold Spring Harbor, NY

Sep 21st, 2016 | By | Category:
Job ID: 5977
Job date: 2016-09-20
End Date:

Company : Cold Spring Harbor Laboratory 

Country :

Role : Research Scientist 

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Job Description:
The Ware Lab at the world-renowned Cold Spring Harbor Laboratory ( CSHL ) has an immediate opportunity for a Computational Science Developer.

CSHL is ranked first among the leading basic research institutions in the world in molecular biology and genetics and has been home to eight scientists who have been awarded the Nobel Prize in Physiology or Medicine. The Ware Lab is located at the beautiful, main campus of CSHL and focuses on genome organization and evolution in plants and building extensive software infrastructure to enable both research activity and community access.

We work in a collaborative environment made up of enthusiastic scientists and software engineers, engaged in large-scale, open-science, systems-biology projects such as Gramene, KBase, and iPlant, as well as more focused, experimentally validated research studies. The lab is funded by grants from a number of sources, including the National Science Foundation, the US Department of Energy, and the US Department of Agriculture.

Specific Responsibilities:
We are seeking a highly driven, experienced software engineer to work on projects such as the ones listed above and other lab processes and activities. You will become an integral member of a multi-disciplinary team that drives the vision of the projects to success. You will collaborate with internal and external partners on several initiatives, from architecting data flows to implementing cool visualizations. Your job duties will include building web-based scientific applications that support bioinformatics workflows and dynamic interfaces for public project portals using a cutting-edge technology stack. You will design, develop, and maintain web and back-end applications for interfacing with public APIs, a variety of database systems, and large data sets. You will demonstrate the design and product of your work in internal meetings and at academic conferences in US and abroad. You will lead technical discussions and actively participate in code reviews and peer mentoring. You will directly contribute to the development process by leveraging experience in areas such as data analysis workflows, SQL and NoSQL solutions, automated testing frameworks and continuous deployment frameworks.

Additional Desired Responsibilities:
As a candidate for this position, you are technically flexible and comfortable with rapid prototyping and frequent interaction with individuals at varying levels of technical expertise. You have a demonstrated passion for writing quality open-source software. You release your code early and often. You love test-driven development. You have excellent communication skills and can translate scientific challenges into practical software solutions. You seek knowledge and intellectual growth.

Ware Lab website:

Position Requirements
Required Qualifications:
• Master’s (Bachelor’s) degree in computer science, computational biology or a related
scientific field and at least two (five) years of hands-on experience in large, complex
software development projects.
• Extensive programming experience in a high level language such as Python, Java, Perl or C/C++.
• Hands on experience having built at least one significant scientific application based on large data analysis.
• Solid experience working with one or more relational and non-relational databases.
• Experience working with large databases and datasets, as well as ETL operations.
• Experience with code review, unit testing and integration testing
• Familiarity with source-code management tools such as git or svn.
• Good working knowledge of basic UNIX command line tools (e.g. tar, cat, ssh).
• Good verbal and writing skills.
Additional Desired Qualifications:
• Broad understanding of bioinformatics tools used for genome analysis, next-generation sequencing data analysis and gene function prediction.
• Hands on experience having implemented one or more bioinformatics workflows
• Experience with user-centered design and knowledge of web technologies including
HTML and CSS .
• Proficiency in JavaScript client-side frameworks such as React, AngularJS, or Ember.
• Experience with dynamic data visualization technologies such as D3, SVG and Canvas
• Data and statistical analysis using R, Matlab or similar tool.
• Familiarity with scientific data models/formats.
• Experience with Drupal or other content-management systems.
• Proficiency with machine learning techniques.
• Experience in agile methodologies such as pair programming, continuous integration,
and refactoring.
• Experience engaging the user community of a real software project, knowing how to
prioritize important feedback from real-world usage for future development of the project
alongside with the project’s own internal roadmap and vision.
If interested, please apply for this position via the CSHL careers website at:
Position Number: 00924-A
Cold Spring Harbor Laboratory is a world-renowned research and educational institution with programs in cancer, neuroscience, plant biology, genomics and bioinformatics. The Laboratory is recognized internationally for its excellence in research and educational activities.
For more information about CSHL , please visit us at
CSHL is an EO/AA Employer. All qualified applicants will receive consideration for employment and will not be discriminated against on the basis of race, color, religion, sex, sexual orientation, gender identity, national origin, age, disability or protected veteran status.
VEVRAA Federal Contractor

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