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NewLimit Logo NewLimit · IT - Software Development

Bioinformatics Software Engineer / Analyst

United States, South San Francisco 140000.00 - 200000.00 USD / Year · Job Posted January 13, 2026
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Job Description

NewLimit is seeking a Bioinformatics Software Engineer / Analyst to join our Predict team. In this role, you will develop, improve, and operate bioinformatics pipelines supporting large-scale single-cell perturbation screens. Success in this position requires a deep attention to methodological detail at every stage of the analysis, as well as careful measurement and evaluation of pipeline performance. You will work closely with experimentalists and computational scientists to maintain core infrastructure, assess emerging analysis tools, and build robust software solutions that improve efficiency, scalability, and reliability.

Job Responsibility

  • Collaborate with Write, Read, and Predict teams to support the design, execution, and interpretation of experiments using single-cell and multi-omics data
  • Contribute to the development and implementation of primary and secondary analysis software
  • Improve and run production pipelines for large-scale single-cell perturbation screens to ensure timely and reliable data delivery
  • Contribute to the development of reproducible, well-documented computational workflows and internal best practices
  • Develop microservice web applications and integrations that reduce wet lab manual effort and improve data flow between teams

Requirements

  • Bachelor’s in Bioinformatics, Biostatistics, Computational Biology, Computer Science, or a related technical field, or equivalent industry experience
  • Experience analyzing and interpreting single-cell or multi-omics datasets (e.g., scRNA-seq, multiome, scATAC-seq)
  • Familiarity with core single-cell bioinformatics workflows, including demultiplexing, alignment, and quality control
  • Strong software engineering fundamentals and experience working with bioinformatics tools and pipelines
  • Working knowledge of statistical and machine learning methods applied to biological data

Nice to have

  • Proficiency with Python-based data science tools (NumPy, SciPy, Pandas)
  • Experience with cloud computing environments (AWS, GCP, or Azure)
  • Strong Python programming skills and comfort working in Unix-based environments
  • Experience with containerized workflows (Docker, Singularity)
  • Familiarity with molecular biology workflows and experimental genomics

What we offer

  • Health, dental, and vision insurance
  • 401(k) with company match
  • Industry-leading paid time off (PTO) -- 20 days/year for all employees + holidays
  • Paid parental leave
  • Meals and snacks on-site
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