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Nextflow Bioinformatics Jobs in California (NOW HIRING)

Natera

Principal Software Engineer

South San Francisco, CA · Remote

$162K - $217K/yr

Prior work in any of the following helps you ramp faster, but is not required: scientific or bioinformatics computing, LIMS or laboratory data systems, workflow orchestration engines (Nextflow, WDL ...

Natera

Principal Software Engineer

South San Francisco, CA · On-site

$162K - $217K/yr

Prior work in any of the following helps you ramp faster, but is not required: scientific or bioinformatics computing, LIMS or laboratory data systems, workflow orchestration engines (Nextflow, WDL ...

Valius Sciences

Computational Biologist

San Francisco, CA · On-site

$125K - $185K/yr

We're building the diagnostics and bioinformatics company to power this future, starting by ... Nextflow, Git) * Proven ability to move quickly and deliver rigorous results in parallel * Clear ...

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Nextflow Bioinformatics information

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 skills and qualifications are needed to thrive as a Nextflow bioinformatics specialist?

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 common challenges 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 are popular job titles related to Nextflow Bioinformatics jobs in California? For Nextflow Bioinformatics jobs in California, the most frequently searched job titles are:
What job categories do people searching Nextflow Bioinformatics jobs in California look for? The top searched job categories for Nextflow Bioinformatics jobs in California are:
What cities in California are hiring for Nextflow Bioinformatics jobs? Cities in California with the most Nextflow Bioinformatics job openings:
Nextflow Bioinformatics jobs near you
Infographic showing various Nextflow Bioinformatics job openings in California as of August 2026, with employment types broken down into 63% Full Time, 33% Part Time, 2% Temporary, and 2% Contract. Highlights an 54% Physical, 3% Hybrid, and 43% Remote job distribution.

Computational Scientist II

Software Guidance & Assistance

South San Francisco, CA • On-site

Other

Re-posted 15 days ago

Job description

Software Guidance & Assistance, Inc., (SGA), is searching for a Computational Scientist II for a contract assignment with one of our premier Pharmaceutical clients in South San Francisco, CA .
Responsibilities :
We are seeking a highly motivated and collaborative Computational Scientist to join labs within the firm's Research and Early Development. The successful candidate will derive actionable insights from high-content perturbation screens of ex vivo systems. This role requires a deep understanding of computational methods for analyzing sequencing-based, multi-conditional perturbation data (e.g. Sci-plex, Perturb-seq, CROP-Seq), a passion for innovation, and a commitment to improving healthcare outcomes through cutting-edge technology.
  • Analyze large-scale high-content sequencing-based perturbation datasets
  • Collaborate with interdisciplinary and cross-functional teams including biologists, chemists, data scientists, and other stakeholders.
Required Skills :
  • PhD degree in quantitative field ( e.g., Computational Biology, Bioinformatics, Computer Science, Statistics, Mathematics) or in the physical or life sciences (e.g., Chemistry, Biology) with a strong quantitative focus.
  • Proven track record of analyzing large-scale multi-conditional scRNA-seq datasets
  • Demonstrated interest in problems across biology and chemistry as applied to the discovery and development of treatments for disease.
  • Proficiency in scientific programming in Python.
  • Strong background in statistics, probabilistic modeling and data analysis.
  • Excellent communication, collaboration, and problem-solving skills.
  • Strong publication record and experience contributing to research communities.
Preferred Skills :
  • Experience with the analysis of Perturb-seq/CROP-seq data, or more generally with CRISPR data
  • Multimodal data integration, in particular between multiple measurement modalities and/or clinical patient data
  • Experience with workflow managers such as nextflow or snakemake
  • Practical experience with working on HPC systems / SLURM
SGA is a technology and resource solutions provider driven to stand out. We are a women-owned business. Our mission: to solve big IT problems with a more personal, boutique approach. Each year, we match consultants like you to more than 1,000 engagements. When we say let's work better together, we mean it. You'll join a diverse team built on these core values: customer service, employee development, and quality and integrity in everything we do. Be yourself, love what you do and find your passion at work. Please find us at .
SGA is an Equal Opportunity Employer and does not discriminate on the basis of Race, Color, Sex, Sexual Orientation, Gender Identity, Religion, National Origin, Disability, Veteran Status, Age, Marital Status, Pregnancy, Genetic Information, or Other Legally Protected Status. We are committed to providing access, equal opportunity, and reasonable accommodation for individuals with disabilities in employment, and our services, programs, and activities. Please visit our company to request an accommodation or assistance regarding our policy.

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