About the Role As a Bioinformatics Research Engineer, you will work on Freenome’s ML research platform, developing and deploying bioinformatics pipelines. As part of an interdisciplinary R&D team, you will work in close collaboration with computational biologists, machine learning scientists and software engineers. You will develop cutting edge solutions at the intersection of machine learning, genetic sequencing technology, and distributed systems. These contributions will drive our mission to diagnose cancer at its most actionable and early stages. Responsibilities: Work at the intersection of machine learning research, software engineering and biological data Lead the development of Freenome’s bioinformatics research framework and internal tools Manage and integrate data sources across the company (laboratory, bioinformatics, clinical) to enable development of advanced multi-omic analysis. Build for significant growth and scaling challenges as we transition from research to product development Engineer robust and reproducible data pipelines that enable cutting edge liquid biopsy research Improve the reliability and scalability of our science platform as it grows Develop software and workflows that support a long term vision for bioinformatics research and production Enable data driven science discoveries in biology and healthcare What We're Looking For: 3+ years of experience with bioinformatics infrastructure, automation, and software engineering 2+ years of experience in a research or academic setting B.S. or M.S. in computer science, bioinformatics, a related technical field, or comparable experience Expertise building and launching large-scale bioinformatics frameworks and databases, connecting data from lab to analysis. Experience in analyzing and troubleshooting data management systems Expertise in software design and development, especially in Python Thorough understanding of computational biology fundamentals related to NGS or multi-omic data sources Experience building and launching projects in a production software environment, including use of automated testing, version control, and deployment systems A systematic problem-solving approach, effective communication skills and a strong desire to own and drive your work Nice to Haves: Experience with specific bioinformatics tools such as samtools, htslib, bioconductoR, GATK, adapter trimming, duplicate marking, sequence alignment, mass spec, etc. Machine learning and data science tools, such as R, Python, Sklearn, TensorFlow, pyTorch, Jupyter Experience with containerized cloud computing environments, such as Docker in GCP or AWS Data pipelines, such as Metaflow, Flyte, Kafka, Spark, Airflow, Argo, Hadoop, Snakemake, or CWL Experience with high performance programming languages such as C/C++, Go, or Rust Job orchestration and distributed systems, such as Kubernetes, Terraform or Ansible Large-scale and/or high-performance storage systems, such as PostgreSQL, MySQL, Redis, HBase, Spanner, or Cassandra About Freenome Freenome is on a mission to empower everyone with the tools they need to detect, treat, and ultimately prevent diseases.
