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Nextflow Bioinformatics Jobs (NOW HIRING)

Mithrl

Bioinformatics Engineer, Pipelines

San Francisco, CA · On-site

$150K - $200K/yr

You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and ... Design and maintain production grade bioinformatics pipelines for a wide range of data modalities ...

Mithrl

Bioinformatics Engineer, Pipelines

San Francisco, CA · On-site

$150K - $200K/yr

You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and ... Design and maintain production grade bioinformatics pipelines for a wide range of data modalities ...

Vivo HealthStaff

Bioinformatics Scientist

Boston, MA · On-site

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

Vivo HealthStaff

Bioinformatics Scientist

Boston, MA · On-site

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

Vivo HealthStaff

Bioinformatics Scientist

Winter Park, FL · On-site

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

Vivo HealthStaff

Bioinformatics Scientist

Winter Park, FL · On-site

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

Vivo HealthStaff

Bioinformatics Scientist

Ann Arbor, MI · On-site

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

Vivo HealthStaff

Bioinformatics Scientist

Boston, MA · On-site

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

Vivo HealthStaff

Bioinformatics Scientist

Boston, MA

$170K - $190K/yr

Significant, hands-on experience with Nextflow and Docker is critical for pipeline development. Proficiency with standard bioinformatics tooling (Python, Linux, Git) is required. * Sequencing Data:

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Nextflow Bioinformatics information

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$59.5K

$94.5K

$149.5K

How much do nextflow bioinformatics jobs pay per year?

As of May 29, 2026, the average yearly pay for nextflow bioinformatics in the United States is $94,474.00, according to ZipRecruiter salary data. Most workers in this role earn between $67,500.00 and $129,500.00 per year, depending on experience, location, and employer.

What are the key skills and qualifications needed to thrive as a Nextflow Bioinformatics specialist, and why are they important?

To thrive as a Nextflow Bioinformatics specialist, you need a strong background in bioinformatics, scripting languages (such as Python or Bash), and experience with workflow management systems, often supported by a relevant degree in bioinformatics, biology, or computer science. Proficiency with Nextflow, containerization platforms (like Docker or Singularity), and high-performance computing environments is typically required. Problem-solving ability, strong attention to detail, and effective collaboration are critical soft skills in this role. These competencies are essential for developing reproducible, scalable analysis pipelines that drive accurate biological insights in research or clinical settings.

What are some common challenges faced when developing and maintaining Nextflow pipelines in a bioinformatics team?

One common challenge in developing and maintaining Nextflow pipelines is ensuring reproducibility and compatibility across different computing environments, such as local clusters and cloud platforms. Collaborating with team members often involves integrating diverse tools and datasets, which can introduce version conflicts or software dependency issues. Additionally, keeping pipelines up-to-date with rapidly evolving bioinformatics methods requires strong communication and regular code reviews within the team. Effective documentation and modular pipeline design can help address these challenges and streamline collaborative workflows.

What is a Nextflow Bioinformatician?

A Nextflow Bioinformatician is a specialist who uses the Nextflow workflow management system to design, implement, and maintain computational pipelines for analyzing biological data. They typically work with large-scale sequencing datasets, automating processes such as data preprocessing, alignment, variant calling, and more. Their expertise lies in combining programming skills with bioinformatics knowledge to streamline and reproduce complex analyses, often in high-performance or cloud computing environments. This role is critical for ensuring reliable, scalable, and reproducible results in genomics and other life science research.

What is the difference between Nextflow Bioinformatics vs Bioinformatics Analyst?

AspectNextflow BioinformaticsBioinformatics Analyst
CredentialsTypically requires a degree in bioinformatics, computer science, or related fields; familiarity with scripting and workflow management toolsUsually holds a degree in bioinformatics, biology, or related disciplines; strong analytical and programming skills
Work EnvironmentResearch labs, biotech companies, or academic institutions; focuses on developing and executing computational workflowsData analysis in research or clinical settings; interprets biological data and reports findings
Industry UsageUsed in genomics, transcriptomics, and large-scale data processing projectsApplied in research, healthcare, and diagnostics to analyze biological datasets

While both roles require bioinformatics knowledge, Nextflow Bioinformatics specializes in managing and automating computational workflows using tools like Nextflow, whereas Bioinformatics Analysts focus on analyzing biological data and interpreting results. The roles often overlap but differ in technical focus and responsibilities.

More about Nextflow Bioinformatics jobs
What cities are hiring for Nextflow Bioinformatics jobs? Cities with the most Nextflow Bioinformatics job openings:
What states have the most Nextflow Bioinformatics jobs? States with the most job openings for Nextflow Bioinformatics jobs include:
What job categories do people searching Nextflow Bioinformatics jobs look for? The top searched job categories for Nextflow Bioinformatics jobs are:
Nextflow Bioinformatics jobs near you
Infographic showing various Nextflow Bioinformatics job openings in the United States as of May 2026, with employment types broken down into 5% Internship, 26% Full Time, 53% Part Time, 5% Temporary, and 11% Contract. Highlights an 22% Physical, 10% Hybrid, and 68% Remote job distribution, with an average salary of $94,474 per year, or $45.4 per hour.
Bioinformatics Engineer - Nextflow and AWS Specialist (6 months contract)

Bioinformatics Engineer - Nextflow and AWS Specialist (6 months contract)

Twist BioScience

Remote

Full-time, Contractor

Posted 10 days ago

Twist Bioscience rating

7.7

Company rating: 7.7 out of 10

Based on 7 frontline employees who took The Breakroom Quiz

Job description

Bioinformatics Engineer- Nextflow & AWS Specialist (6 months contract)We are seeking an experienced Senior Bioinformatics Engineer with deep expertise in Nextflow, AWS cloud infrastructure, and containerized workflow development. This role is ideal for someone who can architect, optimize, and scale production-grade bioinformatics pipelines while collaborating across engineering and scientific teams. You will be responsible for building resilient, high-performance workflow systems that support large-scale NGS data processing.This position requires availability to work within Pacific Time (PST) hours.What You'll DoArchitect and develop advanced Nextflow pipelines for NGS data processing, analysis, and multi-step workflow orchestration.Deploy, operate, and optimize pipelines on AWS EKS and Batch.Build and maintain Docker-based container environments for reproducible and portable bioinformatics pipelines.Develop and maintain robust Python tooling to support workflow automation, QC reporting, monitoring, and data integration.Implement workflow observability, logging, and cost-optimized execution strategies for large-scale genomic data.Collaborate with sequencing, bioinformatics, and platform engineering teams to improve workflow reliability and performance.Establish best practices for pipeline versioning, continuous integration, automated testing, and cloud-based deployment.Ensure pipelines are highly reproducible, fault-tolerant, and suitable for production environments in regulated or high-stakes settings.What You'll BringRequired Qualifications5+ years of experience in bioinformatics, computational biology, workflow engineering, or related fields.Expert-level proficiency in Nextflow, including DSL2, modules, workflow optimization, and pipeline debugging.Strong hands-on experience with AWS, particularly:EC2 compute environmentsS3 for cloud storageEKS for workflow executionDeep expertise with Docker, including custom image creation, multi-stage builds, and best practices for pipeline reproducibility.Strong Python development skills with production-level experience, testing frameworks, packaging, and tooling.Experience operating in cloud-native environments with distributed computing, autoscaling, cost-optimization, and workflow orchestration.Solid understanding of NGS data formats, sequencing workflows, and common bioinformatics tools.Strong Linux skills and experience with CI/CD systems.Ability to work effectively in PST time zone (remote or onsite).Nice to HaveExperience with Java/GroovyExperience building and using APIsExperience with Nextflow Tower or similar workflow management platforms.Experience configuring Kubernetes workloads for genomics pipelines.Background in synthetic biology, DNA design, or high-throughput genomic library analysis.Experience collaborating with wet labs or platform teams on sequencing pipeline requirements.About Twist BioscienceTwist Bioscience synthesizes genes from scratch, known as "writing" DNA.

Just as children learn to both read and write, the next phase of development for the genomics revolution is the ability to write DNA.At Twist Bioscience, we work in service of people who are changing the world for the better. In fields such as health care, agriculture, industrial chemicals and data storage, our unique silicon-based DNA Synthesis Platform provides precision at a scale that is otherwise unavailable to our customers.Twist Bioscience Corporation is an Equal Opportunity Employer. Twist Bioscience Corporation provides equal employment opportunities to all employees and applicants for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, disability, genetic characteristics, or any other category protected by law. Salary: .

Date posted: 12/20/2025

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