Instrumentation Software Engineer - Pathogen

Led by a world-class faculty of scientists, technologists, policy makers, economists and entrepreneurs, the Ellison Institute of Technology aims to develop and deploy commercially sustainable solutions to solve some of humanity’s most enduring challenges. Our work is guided by four Humane Endeavours:
Health, Medical Science & Generative Biology, Food Security & Sustainable Agriculture, Climate Change & Managing Atmospheric CO2 and Artificial Intelligence & Robotics.

Set for completion in 2027, the EIT Campus in Littlemore will include more than 300,000 sq ft of research laboratories, educational and gathering spaces. Fuelled by growing ambition and the strength of Oxford’s science ecosystem, EIT is now expanding its footprint to a 2 million sq ft Campus across the western part of The Oxford Science Park. Designed by Foster + Partners led by Lord Norman Foster, this will become a transformative workplace for up to 7,000 people, with autonomous laboratories, purpose-built laboratories including a plant sciences building and dynamic spaces to spark interdisciplinary collaboration.

The Pathogen Mission highlights EIT’s transformative approach, using Whole Genome Sequencing (WGS) and Oracle’s cloud technology to create a global pathogen metagenomics system. This initiative aims to improve diagnostics, provide early epidemic warnings, and guide treatments by profiling antimicrobial resistance. The goal is to deliver certified diagnostic tools for widespread use in labs, hospitals, and public health.

EIT Oxford fosters a culture of collaboration, innovation, and resilience, valuing diverse expertise to drive sustainable solutions to humanity’s enduring challenges.

The EIT Pathogen Programme, Applied Sequencing Team is seeking an Instrumentation Software Engineer to help shape the future of diagnostic technology.

In this role, you’ll design and develop control software, firmware, and embedded applications that bring laboratory instrumentation to life, enabling real-time coordination of pumps, valves, sensors, and actuators within a cutting-edge point-of-care metagenomic sequencing platform.

As the first Instrumentation Software Engineer on the team, you’ll act as a subject matter expert, adapting to the evolving needs of a dynamic R&D programme.

You’ll work closely with electrical instrumentation engineers, microfluidic scientists, and data engineers to transform system requirements into intelligent, automated instruments capable of precise fluidic manipulation, heating, cooling, and telemetric data collection.

This is a hands‑on R&D role for an engineer who loves bridging hardware and software, writing code that makes physical systems move, think, and measure.

• Design, implement, and maintain control software, firmware, and automation systems for in-house laboratory instruments.
• Integrate hardware and software, ensuring seamless communication between electrical, mechanical, fluidic, and computational subsystems.
• Develop and test embedded control logic for pumps, valves, sensors, and actuators used in microfluidic and diagnostic instrumentation.
• Implement and maintain device communication protocols (e.g., serial, I²C, SPI, Modbus, CAN, TCP/IP) for hardware integration.
• Develop telemetry and data logging systems to capture and visualise real‑time operational data.
• Collaborate with the Electrical Instrumentation Engineer to ensure software and hardware systems operate cohesively.
• Test, validate, and debug software and firmware on prototype instruments to ensure reliability and accuracy.
• Write clear documentation, including inline comments, user manuals, and design notes to support maintainability and reproducibility.
• Conduct code reviews, write unit tests, and participate in CI/CD workflows to maintain high‑quality, traceable software.
• Support integration testing and verification within the full instrument stack, from benchtop setups to deployed prototypes.

• Degree or equivalent experience in Software Engineering, Computer Science, Electrical/Electronic Engineering, or a related discipline.
• Proven experience developing software for instrumentation,…