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Nextflow Bioinformatics Jobs (NOW HIRING)

Axle

Bioinformatics Scientist

Bethesda, MD

Address bioinformatics, scientific computing, and data analysis needs of users within the Division ... Snakemake, Nextflow, CWL/WDL * Expertise building technical and user documentation for tools ...

Axle

Bioinformatics Scientist

Bethesda, MD

Address bioinformatics, scientific computing, and data analysis needs of users within the Division ... Snakemake, Nextflow, CWL/WDL * Expertise building technical and user documentation for tools ...

Roche

Sr. Manager, Bioinformatics

Santa Clara, CA · Hybrid

$170K - $316K/yr

You will lead an elite team of bioinformatics scientists and software engineers to create bespoke ... frameworks (e.g., Nextflow, Snakemake), and scripting languages (Python, R). * You have ...

Roche

Sr. Manager, Bioinformatics

San Diego, CA · Hybrid

$170K - $316K/yr

You will lead an elite team of bioinformatics scientists and software engineers to create bespoke ... frameworks (e.g., Nextflow, Snakemake), and scripting languages (Python, R). * You have ...

LLNL

Bioinformatics Scientist

Livermore, CA

Advanced experience in scientific computing tools such as C/C++, Python, R, MATLAB, Nextflow ... operational bioinformatics activities. * Advanced experience in large data management such as ...

LLNL

Bioinformatics Scientist

Livermore, CA · On-site

$9.8K/wk

Advanced experience in scientific computing tools such as C/C++, Python, R, MATLAB, Nextflow ... operational bioinformatics activities. * Advanced experience in large data management such as ...

LLNL

Bioinformatics Scientist

Livermore, CA · On-site

Advanced experience in scientific computing tools such as C/C++, Python, R, MATLAB, Nextflow ... operational bioinformatics activities. * Advanced experience in large data management such as ...

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All JobsNextflow Bioinformatics Jobs

Nextflow Bioinformatics information

See salary details

$59.5K

$94.5K

$149.5K

How much do nextflow bioinformatics jobs pay per year?

As of Jul 14, 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 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.

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.
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 July 2026, with employment types broken down into 87% Full Time, 11% Part Time, 1% Temporary, and 1% Contract. Highlights an 82% Physical, 2% Hybrid, and 16% Remote job distribution, with an average salary of $94,474 per year, or $45.4 per hour.
Bioinformatics Scientist

Bioinformatics Scientist

Axle

Bethesda, MD

Other

Medical, Dental, Vision, Retirement, PTO

Re-posted 16 days ago

Job description

(ID: 2026-1976)
 
Axle is a bioscience and information technology company that offers advancements in translational research, biomedical informatics, and data science applications to research centers and healthcare organizations nationally and abroad. With experts in biomedical science, software engineering, and program management, we focus on developing and applying research tools and techniques to empower decision-making and accelerate research discoveries. We work with some of the top research organizations and facilities in the country including multiple institutes at the National Institutes of Health (NIH).

Benefits We Offer:

  • 100% Medical, Dental & Vision Coverage for Employees
  • Paid Time Off and Paid Holidays
  • 401K match up to 5%
  • Educational Benefits for Career Growth
  • Employee Referral Bonus
  • Flexible Spending Accounts:
    • Healthcare (FSA)
    • Parking Reimbursement Account (PRK)
    • Dependent Care Assistant Program (DCAP)
    • Transportation Reimbursement Account (TRN)

Axleis seeking a highly ambitious, adaptable, structured, and detail-oriented Bioinformatics Scientist to join our vibrant team at the National Institutes of Health (NIH), National Institute of Allergy and Infectious Diseases (NIAID), Division of Intramural Research (DIR), Research Technologies Branch (RTB), Integrated Data Sciences Section (IDSS) in Bethesda, MD. 
Responsibilities:

  • Address bioinformatics, scientific computing, and data analysis needs of users within the Division of Intramural Research (DIR) at NIAID and their collaborators by lending expertise in the proper statistical design of biological experiments involving high-throughput genome-scale technologies, data mining and knowledge discovery techniques, automated workflow development, statistical and scientific experimental design consulting.
  • Provide bioinformatics support to include somatic and germline variant calling and analysis, single-cell and bulk gene expression analysis, de novo assembly of genomes and transcriptomes, comparative genomics of model and non-model organisms, proteomics, ChIP-seq, ATAC-seq, and the development of high-throughput pipelines for the analysis of the above data modalities.
  • Provide programming and troubleshooting support to the Research Technologies Branch (RTB) of the National Institute of Allergy and Infectious Diseases (NIAID) and collaborating Institutes in the dissemination of research data.
  • Perform computational data analysis on genomic and clinical research data.
  • Work with staff on scientific programming and experimental design. Provide statistical support/analysis on research data.
  • Contribute to and co-author scientific publications in leading peer-reviewed journals.
  • Contribute to the development of a scalable and flexible resource to provide NGS bioinformatics, structural biological and computational, machine learning data support to NIAID scientists and investigators.
  • It is expected that the bioinformatics scientist will need strong skills in the following:
    • NGS analysis (whole-exome, whole-genome, RNA-seq, ChIP-Seq, both long- and short-read technologies, etc.)
    • Statistical modeling
    • Scripting
    • Biological interpretation

Specific Qualifications:

  • Ability to obtain and maintain a Public Trust Security clearance
  • Minimum Bachelor's degree in related field, Master's or Ph.D. preferred
  • 4+ years of experience in bioinformatics
  • 2+ years of experience developing and maintaining production bioinformatics pipelines
  • Expert in two (2) of the following languages: Python, R, C/C++, sh/bash
  • Experience building images using one (1) of the following: Docker, Podman, Singularity/Apptainer
  • Expert in one (1) pipeline framework: Snakemake, Nextflow, CWL/WDL
  • Expertise building technical and user documentation for tools, pipelines, and applications
  • Experience building pipelines locally on-premise using available HPC infrastructure
  • Experience building pipelines/applications in the Cloud with AWS/GCP/Azure is a plus
  • Experience building applications using one (1) of the following frameworks is a plus: Django, Flask, RShiny, Electron, Flutter, React
  • Experience working in a laboratory setting is a plus but not required

Disclaimer: The above description is meant to illustrate the general nature of work and level of effort being performed by individuals assigned to this position or job description. This is not restricted as a complete list of all skills, responsibilities, duties, and/or assignments required. Individuals may be required to perform duties outside of their position, job description or responsibilities as needed.

The diversity of Axle's employees is a tremendous asset. We are firmly committed to providing equal opportunity in all aspects of employment and will not tolerate any illegal discrimination or harassment based on age, race, gender, religion, national origin, disability, marital status, covered veteran status, sexual orientation, status with respect to public assistance, and other characteristics protected under state, federal, or local law and to deter those who aid, abet, or induce discrimination or coerce others to discriminate.

Accessibility: If you need an accommodation as part of the employment process please contact: careers@axleinfo.com

This role has a market-competitive salary with an anticipated base compensation range listed below. Actual salaries will vary depending on a candidate's experience, qualifications, skills, and location.

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