Computational Science Developer III

Wednesday 21st September 2022

Organization Cold Spring Harbor Laboratory
Location Cold Spring Harbor Laboratory
Title Computational Science Developer III
Email Address

The Simons Center for Quantitative Biology at Cold Spring Harbor Laboratory is seeking a highly motivated individual for the position of Computational Science Developer. This person will develop software tools, algorithms, machine-learning models, and genomic analysis pipelines to support the research group of Dr. Adam Siepel. Requirements for the position include experience with C/C++, proficiency in shell scripting and Python, experience with computer clusters and GPUs, and ability to work in a Linux environment. This individual will work under the direct supervision of Dr. Siepel.

Specific Responsibilities include, but are not limited to the following:
· Maintenance, refinement, and support of software tools previously developed by the group that remain in use by the research community, including PHAST, INSIGHT, LINSIGHT, G-PhoCS, ARGweaver, and others. May include implementing new statistical models, algorithms, and analysis features; improving integration with tools at UCSC and elsewhere; optimizing code for improved scalability; and responding to occasional user questions and bug reports.
· Supporting other lab members and ongoing research projects in program design, debugging, optimization, and parallelization. May also include novel algorithm design and development of new machine learning models.
· Performing large-scale genomic analyses in support of research publications and grant proposals. Includes developing software to process large data sets; running analysis programs in parallel on CPU or GPU clusters; and integrating, organizing, and analyzing program output.
· Contribution to general software and database infrastructure of the lab. Includes organizing large data sets, helping to manage disk storage and servers, serving as a liaison to the high-performance computing team in the IT group.

Cold Spring Harbor Laboratory is a world-renowned biomedical research institution in New York. It has shaped contemporary biomedical research and is the home of eight Nobel Prize laureates. Cold Spring Harbor Laboratory provides a highly dynamic and interactive research environment and also a unique opportunity of timely exposure to advances in various biomedical research fields and of interaction with a broad range of researchers from all over the world through its renowned Meetings and Courses program.
We believe that science is for everyone. We have had researchers with a variety of backgrounds and believe in the importance of diversity, equity, and inclusion.
Position Requirements
A Bachelor’s degree in computer science, engineering, or a related field, and 2-3 years of experience in software development. Experience with C/C++ and Python. Strong background in algorithms and data structures. Experience in a Unix/Linux environment, including proficiency in shell scripting. Strong interpersonal skills and ability to work as part of a diverse team. Good oral and written communication skills, with the ability to communicate effectively to colleagues and staff across multidisciplinary areas. Ability to manage multiple projects in a dynamic environment with changing priorities. Ability to help establish realistic goals and deliver work on schedule. Ability to work independently and solve problems as they arise. Interest in molecular biology, genetics, and evolution, and willingness to learn concepts and terminology from these fields as needed.

Preferred Qualifications:
A Ph.D. and/or 6-8 years of related experience. Some experience or training in bioinformatics. Experience working with very large data sets and compute clusters. Training in statistics. Experience with R and/or Matlab. Coursework or job experience in genetics, molecular biology, or evolutionary biology.
For immediate consideration, please apply online to position 03251-R found here:

Compensation and Benefits
Our employees are compensated from a total rewards perspective in many ways for their contributions to our mission, including competitive pay, exceptional health benefits, , discounted onsite Bright Horizons childcare, retirement plans, time off, and a range of recognition and wellness programs. Visit our CSHL Benefits site to learn more.

You are required to be fully vaccinated for COVID-19 as a condition of your employment at the Laboratory. You will be required to provide proof of your vaccination on your first day of employment. Those individuals, who are unable to receive a vaccine due to access issues, will be expected to receive the vaccine upon arrival in New York.

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.