Software Development Engineer II

Fred Hutchinson Cancer Center is an independent nonprofit organization providing adult cancer treatment and groundbreaking research focused on cancer and infectious diseases. Based in Seattle Fred Hutch is the only National Cancer Institute-designated cancer center in Washington.

With a track record of global leadership in bone marrow transplantation HIV/AIDS prevention immunotherapy and COVID-19 vaccines Fred Hutch has earned a reputation as one of the worlds leading cancer infectious disease and biomedical research centers. Fred Hutch operates eight clinical care sites that provide medical oncology infusion radiation proton therapy and related services and network affiliations with hospitals in five states. Together our fully integrated research and clinical care teams seek to discover new cures to the worlds deadliest diseases and make life beyond cancer a reality.

At Fred Hutch we value collaboration compassion determination excellence innovation integrity and respect. Our mission is directly tied to the humanity dignity and inherent value of each employee patient community member and supporter. Our commitment to learning across our differences and similarities make us stronger. We seek employees who bring different and innovative ways of seeing the world and solving problems.

The McCrone Lab is seeking a Software Developer II for support of their cutting edge Nexstrain project. The Software Developer Engineer II (SDE II) will work on Nextstrain an award-winning project for tracking infectious disease epidemics such as the SARS-CoV-2 pandemic Ebola outbreaks Zika spread in the Americas seasonal flu and other emerging and endemic pathogens. This position will augment our existing team to design develop maintain operate and support our software and services that empower research scientists and public health practitioners in the lab and around the world. Nextstrain was developed in collaboration with the Neher Lab at the University of Basel and provides tools for evolutionary analysis of pathogens and genomic epidemiology. We write open-source software in a public development style to power all parts of Nextstrainbioinformatics visualizations analysis pipelines data management and moreand our analyses use open data whenever possible. We work with public health entities and scientists across the world both formally and informally to expand pathogen surveillance capabilities and to improve the automation and robustness of these analyses. Our goal is to empower the wider genomic epidemiology and public health communities to tweak our analyses create new ones and communicate scientific insights using the same tools we do. Our team provides opportunities for cross-disciplinary learning drawing insights from scientists public health practitioners and fellow software developers. We believe in continuous learning and cultivating an environment where all members of the group help each other.

This position will be responsible for general software engineering and development work across the entire Nextstrain stack. This includes command-line applications for bioinformatics and data/workflow management (e.g. Augur Nextstrain CLI) visualization applications for phylogenetics (e.g. Auspice) full-stack web applications for sharing analyses (e.g. ) workflows for data curation and analysis (e.g. ncov-ingest) runtimes for Nextstrain analyses (e.g. docker-base conda-base) and internal tooling/infrastructure to support all of that. The SDE II performs testing troubleshooting and debugging of application throughout the development process. This position reports to the Assistant Professor who leads the lab responsible for maintaining and enhancing NextStrain.

This role will have the opportunity to work partially at our campus and remotely.

• Design develop test document and maintain software under a coherent ecosystem.
• Follow software development best practices to design and develop software features to meet end user specifications.
• Troubleshoots user issues and debugs the software.
• Assist in the analysis of application requirements as requested.
• Release new versions of packaged programs for installation by users and deploy new versions of hosted services to users.
• Configure and manage cloud infrastructure resources (e.g. AWS Heroku Terraform).
• Create extend and troubleshoot automated workflows (e.g. GitHub Actions Snakemake Nextflow WDL).
• Participate in constructive code review processes with other team members.
• Support internal and external users of software projects via various communication channels.
• Create and maintain technical documentation.
• May be responsible for providing on-call support.
• Other duties as assigned.

MINIMUM QUALIFICATIONS:

• Bachelors degree in computer science or equivalent combination of education and experience.
• Minimum of 3-6 years of directly related experience.
• Strong analytical abilities and problem-solving skills.
• Knowledge of relational databases and T-SQL.
• Solid understanding of Object-Oriented Programming concepts data structures and algorithms.
• Understanding of specific programming languages.
• Other department-determined skills or experience may be required.

PREFERRED QUALIFICATIONS:

• Fluency in Python and JavaScript/TypeScript or fluency in similar languages.
• Proficiency with Linux/Unix and command-line interfaces.
• Demonstrated rigor and reproducibility through well organized and well documented code and/or committed to a public code repository (e.g. Github) and commitment to adherence to software development best practices.
• Excellent written and verbal communication skills.
• Motivation to learn and collaborate within an existing teams practices.

The hourly pay range for this position is from $99486 to $157227 and pay offered will be based on experience and qualifications.

This role will have the opportunity to work partially at our campus and remotely.

Although Fred Hutch is not sponsoring most H-1B visas at this time candidates who already hold an H-1B sponsored by another organization and are currently in the U.S. may be eligible for this position.

Fred Hutchinson Cancer Center offers employees a comprehensive benefits package designed to enhance health well-being and financial security. Benefits include medical/vision dental flexible spending accounts life disability retirement family life support employee assistance program onsite health clinic tuition reimbursement paid vacation (12-22 days per year) paid sick leave (12-25 days per year) paid holidays (13 days per year) and paid parental leave (up to 4 weeks).