snakemake jobs in San Diego

Senior Bioinformatics Engineer responsible for designing, building, and operating production-grade, end-to-end bioinformatics pipelines that process and interpret large-scale genome cohorts. The role involves deep expertise in genome assembly, variant calling, structural-variant calling, haplotype phasing, and pangenome analysis, with the ability to select, adapt, and benchmark state-of-the-art algorithms.…See more Requires proficiency in Python and compiled languages (C++/Rust/Go), containerization (Docker/Singularity), workflow managers (Nextflow/Snakemake/WDL), and cloud environments (AWS/GCP). The position combines applied research—exploring AI approaches for biological insight—with continuous improvement of algorithms, code, and computational infrastructure, while mentoring junior staff in a startup environment.

The Bioinformatics Test Engineer will design and execute comprehensive testing strategies for NGS (Next Generation Sequencing) data pipelines, including alignment, variant calling, and annotation workflows. Responsibilities include data validation, regression testing, automated test script development in Python, and collaboration with CI/CD pipelines and cloud-based systems.…See more The role requires deep knowledge of NGS file formats (FASTQ, BAM, VCF), proficiency in Python scripting, hands-on experience with Git and CI/CD tools, and familiarity with cloud platforms (AWS/GCP/Azure) to ensure data accuracy and pipeline reliability.

Bioinformatics QA role focused on designing and executing comprehensive testing, validation, and automation strategies for genomics pipelines and laboratory data platforms. Responsibilities include developing automated test suites in Python, validating NGS workflows (FASTQ, BAM, VCF), performing regression and data-validation testing, and collaborating with wet lab and dry lab teams to ensure scientific and technical correctness.…See more The role requires strong Python scripting, CI/CD pipeline experience, cloud platform familiarity (AWS/GCP/Azure), and working knowledge of genomics science fundamentals including sequencing concepts and LIMS integration.