Bioinformatics Engineer II

Ambry Genetics Corporation; United States; Remote; USD 90,000 - 140,000; Full time

Job summary

Ambry Genetics Corporation is seeking a software engineer with strong Python skills and bioinformatics experience. The role involves designing and delivering end-to-end software solutions, mentoring teammates, and collaborating with clients to understand workflows.

Candidates should have a background in Linux environments, relational databases, and modern software practices like Git, testing, and documentation. Excellent communication is essential for success in this role.

Qualifications

• Bachelor’s degree or higher with related field and at least 5 years work experience; Master’s with at least 2 years; PhD in Bioinformatics, CS, or related field.
• Proficient in Python coding.
• Experience in Linux environments (compiling from source, text manipulation).
• Experience with relational databases (MySQL, PostgreSQL, MSSQL).
• Knowledge of software engineering best practices: Git, unit testing, documentation.
• Knowledge of NGS technologies and data formats (FASTQ, BAM, VCF, GTF).
• Excellent communication and interpersonal skills.

Responsibilities

• Drive end-to-end technical solutions from ideation to release.
• Design and develop software per ticket specifications.
• Mentor engineers and set coding standards.
• Provide clear feedback on code reviews.
• Meet with clients and stakeholders to clarify workflows.

Skills

Python

Linux

Relational DBs

Git

Unit testing

Documentation

Bioinformatics formats

Communication

Education

Bachelor’s degree +5 years

Master’s degree +2 years

PhD

Tools

MySQL

PostgreSQL

Microsoft SQL Server

Job description

Compensation

Pay Range: $90,000 - $140,000 USD

Essential Functions

• Drive technical solutions to problems, including end-to-end process flow from ideation to release, and estimating time and complexity

• Design and develop custom software according to ticket specifications

• Act as a role model for the team, settings standards for excellence and mentoring junior engineers

• Provide clear and consistent feedback on code reviews

• Meet with clients, partners, product owners, or other stakeholders to understand and clarify workflows and requirements

• Highlight blockers or issues arising during development to resolve in a timely manner

• Monitor process and log information, troubleshooting issues as needed

• Other duties as assigned.

Qualifications

• Bachelor’s degree (+ at least 5 years work experience), Master’s degree (+ at least 2 years work experience), or PhD degree in Bioinformatics, Computer Science, or a related field

• Proficient in Python coding

• Intermediate-to-advancedexperience working in Linux environments (e.g. compiling programs from source, performing text manipulations with pipes)

• Intermediate-to-advancedexperience in relational databases (e.g., MySQL, PostgreSQL, Microsoft SQL Server)

• Proficiency with software engineering best practices, including git version control, unit testing, and documentation

• Knowledge of next-generation sequencing technologies and standard bioinformatics data formats (e.g., FASTQ, BAM, VCF, GTF)

• Excellent communication and interpersonal skills.

Preferred

• Experience with cloud computing environment (AWS, Azure, Google Cloud)

• Familiarity with Atlassian suite applications (Jira, Confluence, BitBucket)

• Knowledge of clinical genetics databases (e.g., Clinvar, HGMD) and HGVS sequence variant nomenclatures

• Prior experience in biology and/or an understanding of mutation analysis

• Creating and developing Docker containers

• Experience developing APIs

• Experience with CI/CD (e.g. Bamboo, Jenkins, AWS Code Pipeline)

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Equal Opportunity Employer

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