Computational Scientist I (Digital Pathology)

Location: On-site in Cambridge, Massachusetts, United States

Salary: $88,000–$124,000 per year

Company

hirify.global of MIT and Harvard is a biomedical research institute using genomics to advance disease understanding, diagnostics, and therapeutics.

What you will do

• Design, develop, optimize, and deploy machine learning and AI-based digital pathology methods for image segmentation, classification, spatial analysis, and predictive modeling using QuPath and other platforms.
• Build and maintain scalable preprocessing, quality-control, and analysis pipelines for tissue microarray and whole-slide imaging datasets from multiplex immunofluorescence and chromogenic IHC assays.
• Develop validation strategies through benchmarking, performance assessment, and external dataset validation to ensure robust and reproducible workflows.
• Assess image quality, classifier accuracy, artifacts, staining variability, segmentation errors, and tissue integrity with pathologists and scientists.
• Translate biological and clinical questions into quantitative imaging metrics and actionable analytical outputs for surface target validation.
• Coordinate analyses and deliverables across cross-functional teams while maintaining SOP-compliant records, QC documentation, version-controlled code, and organized imaging datasets.

Requirements

• Master’s or Ph.D. in Biomedical Engineering, Bioinformatics, Computer Science, Computational Biology, or a related quantitative life sciences discipline, with expertise in digital pathology and image analysis.
• Master’s degree candidates must have at least 4+ years of relevant industry or academic research experience.
• Hands-on QuPath experience, including cell detection, tissue microenvironment analysis, classifier development, and custom Groovy scripting for workflow automation and scalable image analysis.
• Strong understanding of tissue-based imaging assays and spatial biology, including H&E, chromogenic IHC, mIF, and platforms such as Akoya PhenoImager/Opal, COMET, or equivalent systems.
• Proficiency in Python, R, and/or Groovy for image analysis, spatial data analysis, statistical modeling, and workflow development.
• Experience developing reproducible, well-documented computational workflows with version-controlled code management and structured data organization.
• Strong analytical, problem-solving, and communication skills, with the ability to work effectively in multidisciplinary research environments.

Nice to have

• Deep learning experience with PyTorch, TensorFlow, or equivalent frameworks for tissue segmentation and classification.
• Experience with Indica Labs HALO/HALO AI, Visiopharm, or related commercial digital pathology platforms.
• Familiarity with AWS, Google Cloud Platform, and containerized workflow development using Docker or similar technologies.
• Experience supporting translational oncology, immuno-oncology, or biomarker discovery programs.
• Publications, collaborative projects, or presentations involving computational pathology, spatial biology, or quantitative imaging analyses.

Culture & Benefits

• Collaborative, multidisciplinary research environment involving pathologists, assay biologists, translational researchers, data scientists, and partner institutes.
• Full-time schedule based on 40 hours per week.
• Medical, dental, vision, life, and disability insurance, plus a 401(k) retirement plan and flexible spending and health savings accounts.
• At least 13 paid holidays, winter closure, paid time off, parental and family care leave, and an employee assistance program.