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Amide TechnologiesPosted 4 weeks ago

Software Engineer, Lab Automation

HybridWaltham, Massachusetts, United States

Full Time

Job Summary

Design, implement, and maintain automation systems for peptide synthesis, biologics workflows, assay execution, and laboratory data capture. Program, troubleshoot, and optimize liquid handlers, robotics, analytical instruments, and other lab automation hardware. Integrate lab instruments, ELN, LIMS, databases, and internal data services to ensure experimental outputs are traceable and model-ready. Build scientific software tools that cut manual data transfer, standardize data capture, and shorten the time from experiment to analysis. Partner with assay analytics, platform, and AI/ML colleagues to support design-build-test-learn cycles while evaluating vendors and documenting workflows for team growth. This role is full-time, based in Waltham, Massachusetts, with flexibility in working hours, reporting to the Chief Data Science Officer.

Required Qualifications

  • Software Engineer, Lab Automation Engineer, Scientific Software Engineer, or Automation Scientist
  • degree in Computer Science, Bioengineering, Engineering, Chemical Engineering or a related discipline
  • Strong programming skills in Python, C#, JavaScript or relevant automation software languages
  • Hands-on experience with liquid handlers, robotics, laboratory instruments, scheduling software or other automation systems
  • Experience integrating ELN, LIMS, databases, APIs, instrument files or scientific data platforms
  • Practical troubleshooting ability across hardware, software, data flows and user workflows
  • Experience working in matrixed teams of scientists, engineers and operations colleagues to meet project objectives
  • Strong organizational skills, clear communication and a focus on building reliable systems that scientists can use every day
  • Experience translating laboratory workflows into software requirements, automation methods, data capture steps and acceptance tests
  • full time
  • based at the company's headquarters in Waltham, Massachusetts, USA
  • Flexibility with regard to working hours

Desired Qualifications

  • Understanding of peptide synthesis, biochemical assays, cell-based assays, analytical chemistry or biologics workflows
  • Experience with vendor selection, external integration partners, outsourced automation support or scientific software contractors
  • Experience with database design, laboratory metadata models, barcode workflows, sample tracking or chain-of-custody practices
  • Familiarity with common lab systems and automation environments such as Benchling, Dotmatics, Thermo Fisher, Beckman Coulter or similar platforms
  • Experience building laboratory systems that directly support closed-loop AI/ML workflows, feeding rapid results from synthesis and assays into datasets that are ready for modeling

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