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Bioinformatics Software Engineer II/III

Frederick National Laboratory
Somerset, MD
Closing date
Nov 29, 2022

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Bioinformatics Software Engineer II/III

Job ID: req2614
Employee Type: exempt full-time
Division: Bioinformatics and Computational Science
Facility: NIH
Location: NIH Campus 9000 Rockville Pike, Bethesda, MD 20892 USA

The Frederick National Laboratory is a Federally Funded Research and Development Center (FFRDC) sponsored by the National Cancer Institute (NCI) and operated by Leidos Biomedical Research, Inc. The lab addresses some of the most urgent and intractable problems in the biomedical sciences in cancer and AIDS, drug development and first-in-human clinical trials, applications of nanotechnology in medicine, and rapid response to emerging threats of infectious diseases.

Accountability, Compassion, Collaboration, Dedication, Integrity and Versatility; it's the FNL way.


The Frederick National Laboratory is dedicated to improving human health through the discovery and innovation in the biomedical sciences, focusing on cancer, AIDS and emerging infectious diseases.

The Bioinformatics and Computational Science (BACS) directorate works collaboratively and helps to fulfill the mission of Frederick National Laboratory in the areas of biomedical informatics and data science by developing and applying world leading data science and computing technologies to basic and applied biomedical research challenges, supporting critical operations, developing and delivering national data resources, and employing leading-edge software and data science.

The Advanced Biomedical and Computational Science (ABCS) group is a part of BACS within Leidos Biomedical Research as a technological hub of translational scientists with expertise in structural biology, biology, chemistry, imaging, and informatics. ABCS develops state-of-the-art technologies in large-scale data modeling, analysis, and integration and supports the scientific research at the Frederick National Lab by helping translate scientific questions to technical solutions for cancer and biomedical research.

Work independently and with management to identify and define technical requirements for tasks and timelines
Design, build, test, and deploy scalable and fault-tolerant solutions on-premise (HPC environments) and the Cloud (AWS, Azure, or GCP)
Develop, document, and maintain version controlled quality code in adherence with established design patterns
Mock , develop, and enhance interactive UI designs and elements based on customer requirements
Build docker and singularity containers for various genomic workflows
Provide efficient solutions to reproducible work flow orchestrations on the cloud and local HPC
Automate and perform rigorous unit testing both, in the cloud and on-premise
Author and manage technical documentation that concisely describes design and implementation details
Report project status regularly to management and customers
Manage, publish and maintain code repository (eg. GitHub), container repository (eg. DockerHub) and pipeline repository (eg. Dockstore)
Respond to new feature requests, assist issues raised by userbase and perform program tuning as needed
Plan code and resource-bundle release cycles prioritizing high-demand customer feature requests

Candidates selected for interview will be requested to provide a GitHub repository or samples of code snippets for evaluation. The Software Engineer II/III is expected to work effectively as a member of a team; coordinate activities among other groups located at the Bethesda, Frederick, Rockville and Gaithersburg NCI campuses; follow sound scientific practices and maintain effective documentation of activities and analyses.


To be considered for this position, you must minimally meet the knowledge, skills, and abilities listed below:
Possession of Bachelor's degree from an accredited college/university according to the Council for Higher Education Accreditation (CHEA) in Computer Science, Math or Biomedical Science related field or four (4) years relevant experience in lieu of degree. Foreign degrees must be evaluated for U.S. equivalency

Software Engineer II - In addition to the education requirement, a minimum of two (2) years of progressively responsible experience
Software Engineer III - In addition to the education requirement, a minimum of five (5) years of progressively responsible experience

Ability to obtain and maintain a security clearance


Candidates with these desired skills will be given preferential consideration:
Knowledge of open-source bioinformatics tools and workflows for analysis of Next-Generation sequencing datasets
Experience working with high performance clusters and cloud technologies
Understanding of the basic architectural principles for developing on the cloud and PaaS Services
Certification as an AWS Solutions Architect, Cloud Security Certification, and/or OpenStack Administrator Certification is a plus
Experience with one or more pipeline management frameworks like Snakemake, WDL etc. along with execution engines like Cromwell
Experience developing web-based application front ends utilizing one or more frameworks (eg. HTML, RShiny, Flask and Dash/Plotly)
Experience with building and orchestrating containers (Docker/Singularity) using technologies like Kubernetes
Experience building reliable and scalable applications using cloud technologies like AWS Step Functions, AWS Batch, etc.
Knowledge of building highly distributed, fault-tolerant and scalable frameworks to process large datasets
Knowledge of agile methodology for software project management

Extensive experience with open-source technology, software development and system engineering
Experience in one or more programming languages such as Python, PHP, Javascript, C/C++, R
Solid understanding of application programming in a shared-access, git concurrent-use environment, version control, etc.
Working knowledge of relational and non-relational databases
Ability to work effectively with a team on complex projects with strict requirements, yet take ownership and work independently on large portions of a project with little supervision
Strong communication (written and verbal) and organizational skills

Equal Opportunity Employer (EOE) | Minority/Female/Disabled/Veteran (M/F/D/V) | Drug Free Workplace (DFW)

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