Bioinformatics Pipeline Test Engineer
Katalyst Healthcares and Life Sciences
Job Description:
We are seeking a Bioinformatics Test Engineer to validate and ensure the quality of NGS data pipelines and bioinformatics workflows. The role requires a strong blend of bioinformatics knowledge, QA expertise, and automation skills.
Responsibilities:
We are seeking a Bioinformatics Test Engineer to validate and ensure the quality of NGS data pipelines and bioinformatics workflows. The role requires a strong blend of bioinformatics knowledge, QA expertise, and automation skills.
Responsibilities:
- Design and execute testing strategies for NGS pipelines (alignment, variant calling, annotation).
- Perform data validation, regression testing, and discrepancy analysis.
- Develop automated test scripts (Python).
- Translate requirements into test cases and validation criteria.
- Work with CI/CD pipelines and cloud-based workflows.
- Collaborate with cross-functional teams to ensure data accuracy and reliability.
- Strong understanding of NGS workflows (FASTQ, BAM, VCF).
- Experience in bioinformatics pipeline testing or QA.
- Proficiency in Python scripting.
- Hands-on with Git and CI/CD tools.
- Experience with cloud platforms (AWS/GCP/Azure) and data pipelines.
- Strong problem-solving and communication skills.
- Experience in biotech/life sciences domain.
- Familiarity with Nextflow, Snakemake, or similar workflows.
- Exposure to regulated environments (CLIA/FDA).
- What We're Looking For.
- Strong testing mindset + hands-on engineering skills.
- bility to debug pipelines and explain thought process clearly.
- Experience with real-world data workflows (not just academic projects).
- Mentions NGS pipelines + testing together.
- Has Python + Git + CI/CD.
- Mentions variant calling / VCF validation.
- Worked on cloud or production pipelines.
- Reject or deprioritize if:
- Only academic bioinformatics (no testing/QA).
- Only statistics validation (no system testing).
- No Python or automation.
- No infra experience (cloud / CI/CD / DB).
- Only local scripts, no real pipelines.
- Variant Calling.
- Pipeline Testing.
- Regression Testing.
- Test Strategy OR Test Case Design.
- Data Validation.
- Golden Dataset OR Reference Dataset.
- CI/CD OR "GitHub Actions " OR GitLab OR "Azure DevOps ".
- WS OR S3 OR Cloud.
- Nextflow OR Snakemake OR WDL OR Cromwell.
- utomation Testing.
- Bioinformatics OR Genomics.
- NGS OR "Next Generation Sequencing ".
- VCF OR BAM OR FASTQ.
- Python.
- Testing OR QA OR "Quality Engineer " OR Validation.
- Git.
Vacancy posted 17 hours ago
Similar jobs that could be interesting for youBased on the Bioinformatics Pipeline Test Engineer in San Diego, CA vacancy
- ...Position Overview The Senior Quality/Test Engineer I is responsible for leading the testing... ...and validation. Work closely with bioinformatics scientists and operations to identify... ...software such as bioinformatics analysis pipelines. Familiar with container...SuggestedFull timeFor contractorsWork experience placementLocal areaNight shift
$105k - $145k
...Role: Test and Quality Engineer Location: San Diego, CA (in-office) Salary: $105,000 - $145,000 / yr + stock options, 401k matching, and other benefits. Role Overview Seasats is growing our Manufacturing Operations team to support growing production scale and complexity...SuggestedWork at officeLocal areaVisa sponsorshipWork visaFlexible hoursSeasats
San Diego, CA5 days ago$162k - $203k
...Senior Manufacturing Test Engineer Hybrid - San Diego, California; Hybrid - San Francisco, California Oura's mission is to empower every person to own their inner potential. Our award-winning products help our global community gain a deeper knowledge of their readiness...SuggestedContract workWork at officeLocal areaRemote workFlexible hours3 days per weekOura
San Diego, CA4 days ago$65 - $80 per hour
...****@*****.***, you can also schedule an appointment at to learn more about this opportunity! Position: Wireless Test Engineer (San Diego, CA) Job Overview: We are seeking a Wireless Modem Test Engineer to support the validation, testing, and...SuggestedHourly payWeekly payContract workMonday to FridaySaige Partners
San Diego, CA18 hours ago$100k - $140k
...very challenging work, with the prime directive of "Keeping Our Heroes Connected"? THE OPPORTUNITY Silvus is seeking a RF Test Engineer who will report to the Director of RF Engineering on the RF Engineering team. The successful individual in this role will...SuggestedPermanent employmentFor contractorsWork at officeLocal areaRelocationMonday to FridayMotorola Solutions
San Diego, CA3 days ago- ...PSG is seeking a mid-to-senior level Network Engineer with specialization in SSR (Session Smart Router) platforms and WAN testing to support a classified DoD program. The ideal candidate brings hands‑on experience with WAN architecture, network testing methodologies,...
Point Solutions Group
San Diego, CA5 days ago $70 - $80 per hour
...Job Title: Wireless Test Engineer Protingent Staffing has an exciting contract Wireless Test Engineer with our client located in San Diego, CA. Position Description Protingent Staffing has an exciting contract Wireless Test Engineer with our client located in San Diego...Contract workProtingent
San Diego, CA5 days ago- ...Great Place to Work, we're proud to partner with some of the most admired Fortune 500 brands in the world. Job Title: Wireless Test Engineer Location: San Diego, CA (Onsite 5 Days/Week) Duration: 6 Months Contract Job Summary Seeking a Wireless Test...Contract work
LeadStack Inc.
San Diego, CA3 days ago - ...Systems Software Test Engineer Saronic Technologies is a leader in revolutionizing autonomy at sea, dedicated to developing state-of... ...healthy, observable, and reproducible; harden the CI scheduler pipeline that owns reservations and execution across multiple physical...Permanent employmentTemporary workWork at office
Saronic
San Diego, CA3 days ago $82k - $102k
...Transportation Systems (CTS) and Cubic Defense (CD). Explore more on Cubic.com. Job Details: Job Summary: The Systems Test Engineer will help deliver the quality and performance of military communication system development programs. The role is hands on and requires...Work at officeShift workCubic
San Diego, CA3 days ago- ...Systems Test Engineer IV Mount Indie is seeking a Systems Test Engineer IV to lead integration, validation, and operational evaluation activities across complicated tactical communication systems. This role is responsible for reducing uncertainty through evidence generation...
Mount Indie
San Diego, CA4 days ago $150k - $186k
...Solving that problem is one of the most exciting technical challenges of our lifetime. Zoox is seeking a highly motivated System Test Engineer to be a technical contributor supporting the System Integration and Validation team. You will be leading the integration and...Temporary workRelocation packageZoox
San Diego, CA3 days ago- Contract Job Description Required Knowledge/Skills: At least 4 years of Hand‑on experience in functional, regression, and performance testing for Teamcenter / Enovia PLM Implementation and Migration projects Ability to plan test schedules and strategies in accordance with...Contract work
$94.2k - $141.2k
Company:Qualcomm Technologies, Inc.Job Area:Engineering Group, Engineering Group > Hardware EngineeringGeneral Summary:This position is for the Post Silicon Engineering group that develops test solutions for highly integrated SOCs ( System on Chip) designed by Qualcomm....Work from home$94.2k - $141.2k
Qualcomm in San Diego is looking for an engineering professional to work in the Post Silicon Engineering group. The candidate will develop test solutions for SOCs, manage characterization of high-speed interfaces, and collaborate with cross-functional teams to resolve technical...- ...Contractor On Autonomous System Test Engineering Team As a contractor on the Autonomous System Test Engineering team, you will support the data validation, reporting, and issue-tracking pipelines that enable our autonomous driving systems. You will play a key role...For contractors
Denken Solutions
San Diego, CA4 days ago $134.88k - $166.9k
...Company Qualcomm Technologies, Inc. Job Area Engineering Group Hardware Engineering General Summary This individual independently plans,... ...performs and owns the moderately-defined responsibility for the test solutions, bring‑up, debugging, validation, and qualification of...Qualcomm
San Diego, CA1 day ago$134.88k - $166.9k
...Company:Qualcomm Technologies, Inc.Job Area:Engineering Group, Engineering Group Hardware EngineeringGeneral Summary:This individual independently... ...plans, performs the moderately-defined responsibility for the test solutions, Bring up, debug, validation and qualification of new...Nutanix
San Diego, CA3 days ago$114.61k - $187.27k
...About Quartus Quartus Engineering Incorporated ( is a leading provider of engineering services and integrated hardware solutions for a wide... ...analysis capabilities with design, prototype, integration and test capabilities to create solutions for our clients that are of extraordinary...Permanent employmentRemote workQuartus Engineering
San Diego, CA5 days ago- ...A leading engineering services provider in San Diego is seeking an Opto-Mechanical Engineer I to design and develop mechanical systems for high-performance optical applications. Candidates should possess a BS/MS in Mechanical Engineering or equivalent, with experience...
Quartus Engineering
San Diego, CA1 day ago $132k - $189k
...Senior Water/Wastewater Engineer At HDR, our employee-owners are fully engaged in creating a welcoming environment where each of us is valued and respected, a place where everyone is empowered to bring their authentic selves and novel ideas to work every day. As we...Full timeContract workTemporary workPart timeWork at officeHDR
San Diego, CA3 days ago- Join the team redefining defense technology. From engineering systems that save lives to leading programs that change the battlefield—find... ...early feasibility assessment through design, integration, and test verification—shaping technically sound solutions that meet rigorous...Work at office
- ...Position : Hardware Test Engineer Location : San Diego, CA Duration : 12 Months Contract Total Hours/week : 40.00 1st shift Note: The Test Engineer is primarily onsite but is ok for 3 days in office and 2 remote if they prefer. This...Contract workWork at officeRemote workDay shift
MILLENNIUMSOFT
San Diego, CA1 day ago $115k - $130k
...projects across California and the Desert Southwest. Our development pipeline of solar with integrated storage will generate enough... ...’s growing energy demand. ABOUT THE POSITION The Senior Engineer, Development Engineering is responsible for developing the site...Full timeFlexible hoursNight shiftAvantus
San Diego, CA3 days ago$95k - $140k
...Project Engineer - Water Infrastructure (San Diego, CA) – Hybrid location. A growing engineering consultancy is seeking a talented Project Engineer to join its water infrastructure team in San Diego. This is an excellent opportunity for an engineer who enjoys technical...Local areaLVI Associates
San Diego, CA3 days ago$120k - $140k
...growing Aerospace and Defense innovators. Here, visionary minds engineer the future of space technology through pioneering, compact, and... ...together. A DAY IN THE LIFE: As a Hardware Integration & Test Engineer III , you’ll take a lead role in validating complex hardware...Work visaFlexible hoursInnoflight Inc
San Diego, CA4 days ago$88.8k - $133.2k
...Petco Packaging Engineer Want to help pets live their best lives? We're proud to be where the pets go and where the pet people go... ...specifications, mold and machinery qualification, functionality and quality testing, and technology transfer. Must influence multi-functional teams...Work experience placementLocal areaNight shiftPetco Health and Wellness
San Diego, CA17 hours ago- ...our dreams are bigger than ever. The opportunity to improve health on a global scale stands before us. As a member of the operations Test Lab team, you will support design and development of scalable test methods by executing new test methods and validate these methods...Full timeWorldwide
$106.25k - $166.75k
...performance analog and mixed signal integrated circuits for automated test equipment (ATE), helping the world's leading semiconductor... ...improving speed, accuracy, and efficiency. As a growing, engineering driven company, we offer the opportunity to solve complex technical...Full timeLocal areaRelocation package$120.6k - $180.9k
...Career Area: Engineering Job Description: Your Work Shapes the World at Caterpillar... ...advanced modeling, simulation, and testing. Job Functions: Integrate seal... ...Experience reading and interpreting pipeline compression station P&IDs. Proficiency...Part timeWork experience placementFlexible hoursSolar Turbines
San Diego, CA3 days ago
Do you want to receive more vacancies?
Subscribe and receive similar vacancies to Bioinformatics Pipeline Test Engineer. Be the first to apply!
Related searches
- senior test engineer San Diego, CA
- lead performance test engineer San Diego, CA
- performance test engineer San Diego, CA
- rf test engineer San Diego, CA
- drive test engineer San Diego, CA
- test engineer San Diego, CA
- labor union pipeline San Diego, CA
- pipeline tech San Diego, CA
- pipeline surveying San Diego, CA
- pipeline companies hiring San Diego, CA