Senior Software Engineer-Computational Pathology

The Department of Pathology at St. Jude Children's Research Hospital is seeking a highly motivated Senior Software Engineer to join our expanding Computational Pathology Resource under the direction of Dr. Brent Orr, MD, PhD (Member and Division Director of Anatomic Pathology and Neuropathology).

In this position, you will be a key member of our interdisciplinary team, working closely with image scientists, machine learning researchers, and clinical collaborators to translate cutting-edge computational pathology research into robust, production-quality software tools. You will be responsible for building and maintaining scalable software solutions that enable pathologists and researchers to analyze whole-slide histopathology images, spatial transcriptomics datasets, and multi-omics data from pediatric tumor cohorts. This role offers an excellent opportunity to have a direct impact on pediatric cancer research and patient care by developing software that bridges the gap between research innovation and clinical application.

Responsibilities:

• Design, develop, and maintain software applications and pipelines for digital pathology and spatial omics data analysis
• Drive the full software development lifecycle, including design, implementation, testing, deployment, and maintenance
• Collaborate closely with pathologists, data engineers, and research staff to gather user needs, define software requirements, and ensure reproducibility
• Build user-friendly interfaces and APIs that enable pathologists and researchers to interact with complex image analysis algorithms
• Translate computer vision and deep learning models into reliable, well-documented production tools
• Develop and maintain APIs, web services, and database systems to support computational pathology workflows
• Implement software solutions for large whole slide images datasets in HPC and cloud environments (e.g., SLURM, Kubernetes, AWS)
• Promote best practices in version control, testing, CI/CD, modular design and documentation
• Provide technical support, documentation, and training for users
• Contribute to open-source software and scientific publications

Skills

• Proven experience in developing scientific or production-grade software that is used by others
• Proficiency in at least two programming languages (e.g., Python, C++, Java, Go, Rust) is required; expertise in Python is highly preferred for scientific computing
• Experience with version control (Git), containerization (Docker/Singularity), and Linux/HPC/cloud environments
• Strong written and verbal communication skills; able to collaborate effectively across disciplines
• Familiarity with modern software frameworks and CI/CD practices.
• Ability to work independently and take ownership of projects from conception to deployment

Ways to Stand Out:

• Expertise in medical imaging/digital pathology tools (e.g., QuPath, OpenSlide) and web app development (e.g., Django, React).
• Strong knowledge of containerization (Docker, Kubernetes), cloud platforms (AWS/GCP/Azure), and HPC environments.
• Experience with ML/Deep Learning frameworks (PyTorch, TensorFlow) and production ML deployment.

Minimum Education and/or Training:

• Bachelor's degree in computer science, data science, information science, business, or related field.
• Master's degree preferred.

Minimum Experience:

• Minimum Requirement: Bachelor's degree with 3+ years of experience required.
• Experience Exception: Master's degree with 1+ years of experience.
• Experience with programming languages, databases, and software development lifecycle.
• Experience with the position-specific technical stack preferred.
• Experience with the position-specific scientific domain preferred.
• Proven performance in earlier role/comparable role.

Compensation