Bioinformatics Software Engineer
| Company | Sarepta |
|---|---|
| Location | Cambridge, MA, USA, Philadelphia, PA, USA, Columbus, OH, USA |
| Salary | $100000 – $125000 |
| Type | Full-Time |
| Degrees | Bachelor’s, Master’s, PhD |
| Experience Level | Junior, Mid Level |
Requirements
- BS/ MS / Ph.D. in a STEM discipline with prior software engineering experience: BS/MS with 4+ years of hands-on experience in the biotech/pharmaceutical industry or Ph.D. with 1+ years of professional experience
- Applied knowledge of software design patterns, data modeling, and software architecture.
- Practical experience across the software development lifecycle and associated tools, e.g. Gitlab, Confluence/Jira, deploying to cloud
- Prior experience in bioinformatics and utilizing scientific discipline-specific datatypes, e.g. VCF, CRAM/BAM, or similar experience in another scientific field
- Strong Proficiency in Python and/or R and developing in a (containerized) Linux environment
- Proficiency in relational database interaction, MySQL, PostgreSQL and/or data warehousing, Snowflake, Redshift
- Basic Experience with AWS services (EC2, S3, Batch etc.)
- Undergraduate level of genetics understanding
- Excellent written and verbal communication skills
Responsibilities
- Collaborate on and maintain software solutions to support R&D programs; platforms, reporting, and analytics
- Develop and maintain platforms for managing and annotating genetic data, joining them with other datasets and APIs
- Develop and maintain interactive applications and visual dashboards on top of internal and external data platforms
- Troubleshoot software and workflow problems, ensuring robust and scalable production solutions
- Create and maintain comprehensive documentation, both technical and for non-technical stakeholders
- Evaluate and implement new software tools and technologies where valuable
- Support the development and deployment of software applications across the team using best practices in software engineering
Preferred Qualifications
- Experience using/developing simple APIs in Django/Flask/FastAPI strongly preferred
- Experience with workflow definition frameworks e.g. Dagster, Airflow and/or Nextflow preferred
- Experience with web-based data visualization frameworks including R/Shiny and Python/Streamlit a plus