Plasmidsaurus Inc.
Bioinformatics Pipeline Engineer / South San Francisco
Plasmidsaurus Inc., San Francisco, California, United States, 94199
Plasmidsaurus is on a mission to accelerate new cures and promote a healthier planet by unlocking new productivity levels in scientists using DNA tools to bring their ideas to life. The company’s DNA sequencing services are used daily by thousands of innovators, including Nobel Prize winners, dynamic biotech startups, pharmaceutical companies, research labs, and DIY biohackers, and have been cited in more than 800 publications to date. Plasmidsaurus’s global network of labs operates day and night to enable world-changing discoveries.
Job Summary
As a Bioinformatics Pipeline Engineer, you will be responsible for the design, development, and maintenance of bioinformatics pipelines, primarily using Oxford Nanopore reads.You will collaborate with the bioinformatic and wet lab scientists to understand and implement the specific pipeline goals, while applying your software engineering expertise. A primary focus will be ensuring that our pipelines are robust, scalable, and meet high coding standards. In this job you will:Develop and maintain bioinformatics pipelines using SnakemakeOptimize existing pipelines for performance, reliability, scalability, and maintainability using best practicesTroubleshoot and resolve issues in pipelines, including handling edge cases related to biological and sequencing artifactsCollaborate with both scientists and engineersProvide support and training to the tech support team on pipeline usage and troubleshootingExplore and integrate new bioinformatics tools and technologies to improve pipelinesQualifications
Education and Experience: PhD +1 year production bioinformatics pipeline experience, or Master’s +3 years experience, or Bachelor's +5 years experienceRequired Qualifications:Significant Snakemake experience (or Nextflow)Production bioinformatics pipeline creation, following best practicesCondaDocker / Apptainer / SingularityGit + GitHubPythonBashAbility to write clean, maintainable, and production-ready codeStrong understanding of molecular biology and sequencing technologiesPreferred Qualifications:Experience with long reads (Oxford Nanopore preferred)Performance compiled language (C++, Rust, etc)AWS lambdaAWS S3AWS RDSGithub ActionsREST APIAnsibleSQL alchemyGMP software experienceBenefits
Employee Stock OptionsHealth, Dental, and Vision Insurance401(k) with MatchingPlus: Life Insurance, Mental Health Coverage, Health Advocate, and Gym MembershipWhy Plasmidsaurus?
IMPACT: Your work will directly contribute to accelerating biotech research. This research is one of humanity’s most powerful tools for stopping climate change and developing novel therapies.INNOVATION: Work on the cutting edge of biotech and software, introducing indispensable tools to top-tier researchers.COMMUNITY: Join a passionate, scrappy team that values close, interactive relationships with our customers and each other.
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Job Summary
As a Bioinformatics Pipeline Engineer, you will be responsible for the design, development, and maintenance of bioinformatics pipelines, primarily using Oxford Nanopore reads.You will collaborate with the bioinformatic and wet lab scientists to understand and implement the specific pipeline goals, while applying your software engineering expertise. A primary focus will be ensuring that our pipelines are robust, scalable, and meet high coding standards. In this job you will:Develop and maintain bioinformatics pipelines using SnakemakeOptimize existing pipelines for performance, reliability, scalability, and maintainability using best practicesTroubleshoot and resolve issues in pipelines, including handling edge cases related to biological and sequencing artifactsCollaborate with both scientists and engineersProvide support and training to the tech support team on pipeline usage and troubleshootingExplore and integrate new bioinformatics tools and technologies to improve pipelinesQualifications
Education and Experience: PhD +1 year production bioinformatics pipeline experience, or Master’s +3 years experience, or Bachelor's +5 years experienceRequired Qualifications:Significant Snakemake experience (or Nextflow)Production bioinformatics pipeline creation, following best practicesCondaDocker / Apptainer / SingularityGit + GitHubPythonBashAbility to write clean, maintainable, and production-ready codeStrong understanding of molecular biology and sequencing technologiesPreferred Qualifications:Experience with long reads (Oxford Nanopore preferred)Performance compiled language (C++, Rust, etc)AWS lambdaAWS S3AWS RDSGithub ActionsREST APIAnsibleSQL alchemyGMP software experienceBenefits
Employee Stock OptionsHealth, Dental, and Vision Insurance401(k) with MatchingPlus: Life Insurance, Mental Health Coverage, Health Advocate, and Gym MembershipWhy Plasmidsaurus?
IMPACT: Your work will directly contribute to accelerating biotech research. This research is one of humanity’s most powerful tools for stopping climate change and developing novel therapies.INNOVATION: Work on the cutting edge of biotech and software, introducing indispensable tools to top-tier researchers.COMMUNITY: Join a passionate, scrappy team that values close, interactive relationships with our customers and each other.
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