Bioinformatics Pipeline Engineer (Remote-US)
About The Position
This remote, U.S.-based contract role is part of the Bioinformatics Solutions Engineering group within Research and Development, in the Molecular Genomics & Oncology unit. The team supports genetic and genomic testing in a highly regulated CAP/CLIA laboratory environment, using short- and long-read sequencing. The engineer will contribute to end-to-end design, development, documentation, validation, and launch of diagnostic tests and services, balancing innovation, standards, and quality with practical considerations. The role involves developing, validating, and implementing software applications, databases, processes, and interfaces for next-generation sequencing data analysis, advanced diagnostic testing, data quality review, and clinical reporting. The engineer will serve as a subject matter expert for assigned systems and workflows, support advanced development and production operations, resolve support requests, report progress, prepare analyses and technical communications, and collaborate with cross-functional project teams. The position is offered as a 6+ month contract, with a stated duration of 6–12 months and potential for extension. Candidates must be located in the United States; the role can be performed 100% remotely.
Requirements
- At least 5 years of experience with a bachelor's degree, or at least 2 years of experience with a master's degree, in an industrial or academic setting working with clinical and biological data, or equivalent.
- Experience with bioinformatics methods, database development, query/scripting/programming languages, cloud development, Agile methodology, DevOps, and other data analysis tools.
- Experience with bioinformatics tools including DRAGEN, BWA, VEP, FastQC, MultiQC, samtools, and bedtools.
- Experience with sequencing data analysis, bioinformatics, and variant data analysis.
- Advanced proficiency with interpreted or scripting languages such as Python, JavaScript/TypeScript, or R.
- Experience with Docker.
- Experience designing and working with APIs, such as JSON-based RESTful APIs.
- Experience with Python Flask, React Native, and Bootstrap.
- Familiarity with R Markdown and Jupyter Notebook.
- Experience with at least one of ggplot2/tidyverse, Plotly, matplotlib, Tableau, or d3.js.
- Experience with Git and GitHub CI/CD.
- Familiarity with AI developer tools such as GitHub Copilot.
- Understanding of environment management.
- Must be located in the United States.
- Proof of identity will be required.
Nice To Haves
- Experience with Nextflow; other workflow management tools mentioned include Cromwell and CWL.
- Experience in a clinical diagnostics setting, including regulations, controlled processes, and environment management.
Responsibilities
- Develop, validate, and implement software applications, databases, processes, and interfaces related to next-generation sequencing data analysis, advanced diagnostic testing development and validation, data quality review, and clinical reporting.
- Serve as a subject matter expert on specific systems and workflows supporting advanced development and high-tier production support.
- Participate in resolving support requests.
- Regularly report progress and prepare data analyses for internal review.
- Prepare reports and other communications about technical activities related to business objectives, including product and process development and improvement.
- Work on individual projects or as a project team member, collaborating with software developers, R&D bench scientists, genetic counselors, operations scientists, and other technical business partners.
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What This Job Offers
Career Level
Mid Level
