Senior Bioinformatics Software Engineer

This is a fully remote position, open to applicants in United States.

📋 Description

• Design, develop, and maintain scalable and efficient software solutions for Baylor Genetics’ bioinformatics pipelines.

• Collaborate with and support cross-functional teams to deliver data-driven software solutions that align with business objectives.

• Create and optimize data models for assembly, mapping, variant calling, and variant annotation.

• Develop and enhance ETL processes utilizing APIs.

• Analyze and improve SQL queries and database performance.

• Contribute to the design of database schemas and participate in review sessions.

• Create interactive dashboards and automated reports using BI tools, including Azure Pipelines, Teams Power Automate, email, and Nextflow.

• Work closely with data analysts, business users, clinical reviewers, laboratory staff, and software developers to define requirements and deliver integrations.

• Integrate various data sources to ensure consistency, accuracy, and reliability of data.

• Execute thorough testing and automate testing suites using pytest, doctest, and Azure Pipelines.

• Produce comprehensive documentation, including inline comments, genomic diagrams, docstrings, headers, wikis, README files, and trace mappings.

• Provide support and maintenance for the developed solutions.

• Perform other advanced job-related tasks as assigned.

⛳️ Requirements

• Bachelor’s degree in Computer Science, Software Engineering, Bioinformatics, or a related field; Master’s degree is preferred.

• At least 5 years of experience in software development.

• Demonstrated success in designing and implementing scalable software solutions tailored to diverse user feature requirements.

• Proven history of developing production-ready software solutions from the ground up.

• Extensive knowledge and proficiency in at least two programming languages: Python, Perl, R, or Bash; Java, C++, and Groovy are also acceptable.

• Proficient in SQL Server, NoSQL, MongoDB, MySQL, and ElasticSearch.

• Experience with Agile frameworks and CI/CD practices using Git.

• Familiarity with object-oriented programming and standard software design principles.

• Ability to create high-performance, maintainable, tested, and production-ready software packages from scratch.

• Strong understanding and practical experience in unit and integration testing.

• Proficiency in designing and developing APIs and microservices from the ground up.

• Solid grasp of package management practices, including PIP and Conda.

• Experience with containerization technologies such as Docker and Singularity.

• Strong analytical and problem-solving capabilities.

• Ability to convert complex business requirements into technical solutions and work independently.

• Strong communication skills and flexibility to engage with stakeholders and subject-matter experts.

• Experience in managing individual projects and meeting deadlines.

• Familiarity with Linux OS and HPC clusters is advantageous but not required.

• Experience with workflow management/orchestration tools such as Nextflow, Airflow, or Snakemake is a plus, but not mandatory.

🏝️ Benefits

• Equal opportunity employer committed to fostering an inclusive and diverse workforce.

• Remote work arrangement.