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Juniper Genomics · 1 month ago

AWS Bioinformatics Engineer (Full time remote US/Canada)

United States

Full-time

Remote

Entry, Mid Level

2+ years exp

Juniper Genomics is a venture-backed start-up using genomics and modern data science to improve IVF success rates and access. The AWS Bioinformatics Engineer will manage cross-functional production pipelines, optimize performance, and collaborate with teams to document software releases and validation processes.

Biotechnology

Responsibilities

Become the primary owner of existing cross-functional production pipelines, managing software dependencies across operations, clinical, and product teams to ensure timelines and deliverables stay on track

Help build and maintain comprehensive documentation for workflows and SOPs as requirements evolve, ensuring processes are scalable, intuitive, and well-documented

Collaborate with internal and external teams to document software releases, updates, and validation processes in accordance with regulatory requirements

Monitor and optimize pipeline performance, help identify bottlenecks and implement improvements to enhance throughput, reduce costs, and maintain accuracy

Participate in on-call rotation to ensure continuous operation of critical production systems

Qualification

Python EngineeringAWS InfrastructureNextflow WorkflowsDockerGitHub & DevOpsBioinformatics ToolsCommunication SkillsCollaboration Skills

Required

2-5 years of experience building systems in a genomics, healthcare, or research environment, with strong ability to communicate across domains

2+ years of experience in either a clinical or high-production bioinformatics environment

Strong proficiency in Python for production systems, including object-oriented design, type hints, testing frameworks, and best practices for maintainable production code

Extensive hands-on experience with AWS services including CloudFormation or Terraform for infrastructure as code; S3 for data storage and lifecycle management; EC2 and Batch for compute orchestration; IAM, VPC, and security best practices

Experience building and maintaining Nextflow pipelines, specifically deployed on AWS Batch

Experience with Docker and containerization strategies

Proficient with GitHub for ticketing, code review, documentation, releases, and CI/CD automation using GitHub Actions

Familiarity with standard genomics tools and file formats (FASTQ, BAM, VCF, etc.) and variant calling pipelines