Senior Software Engineer – Drug Discovery Workflow

We are looking for a hands-on Senior Software Engineer to design and implement the drug discovery workflows at the core of Apheris' platform. You will be a strong individual contributor with end-to-end ownership of meaningful technical scope - designing, building, and operating workflows used in production by leading pharmaceutical companies.

What you'll do

• Design and implement drug discovery workflows primarily in Python to solve real drug discovery problems and automate the drug design process.
• Contribute to system design and architectural discussions, helping evolve platform components as the product and customer base scale.
• Collaborate cross-functionally across engineering, data, machine learning, and drug discovery science to deliver cohesive, end-to-end functionality.
• Use AI coding tools efficiently, exercising good judgment on the balance between agentically built proof of concept and robust, production-grade code.
• Write high-quality, maintainable, and well-tested code, and actively participate in code reviews to uphold strong engineering standards.

What you'll need

• A degree in computer science, engineering, computational chemistry/biology, or equivalent hands-on development experience in a related domain.
• 5+ years of professional experience as a developer, with a strong focus on backend systems.
• Strong programming skills in Python.
• Solid experience working with Docker and containerized applications in production environments.
• Strong understanding of software engineering best practices, including testing strategies.
• A strong sense of ownership and accountability for technical outcomes, including reliability and long-term maintainability.

Nice to have

• Experience running drug discovery workflows using engines like Nextflow, Prefect and Argo Workflow.
• Experience working with AWS or another major cloud provider, ideally in hybrid environments that include on-premise deployments.
• Practical experience with Kubernetes, including deploying, operating, and debugging cloud-native workloads.
• Experience with CI/CD pipelines and infrastructure-as-code.

What they offer

• Industry-competitive compensation, including early-stage virtual share options
• Remote-first working – work where you work best, whether from home or a co-working space near you
• Great suite of benefits, including a wellbeing budget, mental health benefits, a work-from-home budget, and a learning and development budget
• Generous holiday allowance
• Office Days at Berlin HQ or different European location (3x a year)