Bioinformatics Software Engineer II- Remote, USA

Compensation: $111,000 - $145,000 per year. You are eligible to a Short-Term Incentive Plan with the target at 7.5% of your annual earnings, terms and conditions apply.

Bioinformatics Software Engineer II- Remote, USA

The Bioinformatics Engineer II is responsible for developing and maintaining computational pipelines for processing clinical sequencing data from customers. This position focuses on implementing robust, scalable bioinformatics solutions using Nextflow, Python, and AWS technologies. This role requires technical proficiency to ensure reliable processing and analysis of customer sequencing data while adhering to quality standards and performance benchmarks.  

Essential Functions

• Develop and maintain bioinformatics data pipelines using Nextflow and Python
• Implement cloud-based solutions utilizing AWS services for efficient data processing
• Refactor existing pipelines to improve performance, maintainability, and scalability
• Apply software development best practices including version control, testing, and documentation
• Troubleshoot and resolve complex technical issues independently
• Design and develop new pipeline components and data analysis methods
• Collaborate with cross-functional teams to implement clinical requirements
• Maintain code quality through code reviews and adherence to coding standards
• Monitor pipeline performance and implement optimizations
• Other duties as assigned 

Qualifications

• Bachelor's degree in bioinformatics, computer science, or related discipline
• At least 3+ years of relevant industry experience
• Strong proficiency with Python programming and Linux environments
• Experience with Nextflow or similar workflow management systems
• Experience with Illumina sequencing data and bioinformatics NGS pipelines
• Knowledge of version control systems, particularly Git
• Demonstrated ability to solve problems independently
• Experience with bioinformatic data formats and processing methods
•    Familiarity with AWS cloud services
•   Ability to work effectively in a collaborative environment
•   Experience with software testing methodologies
•   Strong analytical and debugging skills     

Preferred

• Advanced degree in bioinformatics, computer science, or related disciplines
• Experience with clinical genomics
• Experience with Docker and containerized applications
• CI/CD pipeline experience
• Experience working in a cloud environment (AWS)
• Experience working in a regulated setting

About Us: 

Ambry Genetics Corporation is a CAP-accredited and CLIA-licensed molecular genetics laboratory based in Aliso Viejo, California. We are a genetics-based healthcare company that is dedicated to open scientific exchange so we can work together to understand and treat all human disease faster.

At Ambry, everyone is welcome. A career at Ambry Genetics is a chance to be part of a dynamic company that aims to improve health by understanding the relationships between genetics and human disease. We earned our reputation as industry leaders by responsibly introducing cutting-edge genetic testing solutions and continually sharing what we learn with the global scientific community.

At Ambry you will be learning, challenging yourself, and having fun while collaborating with teammates through the open exchange of ideas.  Our outstanding benefits program includes 401k, medical, dental, vision, FSA, paid sick leave and generous paid time off (PTO) program.  Ambry Genetics is an Equal Opportunity Employer (EOE) and we maintain a drug-free work environment.

The Company believes in second chance employment.  Qualified applicants with arrest or conviction history will be considered regardless of their arrest or conviction history, consistent with local laws such as Los Angeles County Fair Chance Ordinance and the California Fair Chance Act.  You do not need to disclose your criminal history or participate in a background check until a conditional job offer is made to you. After making a conditional offer and running a background check, if the Comp