Bioinformatics Engineer
The Pipelines Engineering team builds and maintains analytical bioinformatics pipelines to reliably translate raw genomic data into clinically actionable insights for a global patient population. We optimize development velocity across R&D and Engineering. We deliver high-quality, reliable, compliant production bioinformatics pipelines and associated infrastructure with global reach and scale. We provide diagnostic tests with the “secret sauce” needed for commercial success.
The Pipelines Engineering team seeks a software/bioinformatics engineer to develop new and refine existing bioinformatics pipelines with global impact and tremendous scale. In this role, you will work as an integral part of a globally distributed development team collaborating closely with R&D to develop production algorithms from statistical models and prototypes and to create data analysis tools supporting research efforts. You will also work closely with stakeholders to define product requirements and translate requirements to corresponding software designs.
Primary responsibilities:
Implement new and enhance existing functionality in our portfolio of pipelines supporting client’s business
Lead the end-to-end delivery of functionality, from requirements to deployment
Process large numerical datasets efficiently
Support and extend our next-generation sequencing framework
Troubleshoot and resolve defects, craft reliable unit tests, perform code reviews and root cause analysis
Continue improving processes and procedures and evangelizing best practices
Understand and be compliant with regulatory, security and data privacy requirements
Qualifications:
BS Computer Science, Bioinformatics, Information Systems, etc. MS preferred.
Data Structures / Algorithms Coursework
Knowledge, skills and abilities:
Containerization: Docker (preferred), Singularity
Orchestration: DNAnexus (preferred), SevenBridges, Azure / AWS Batch, Cromwell, Kubernetes, Toil, miniWDL, AWS Omics
Orchestration Language: WDL (preferred), CWL, YAML, Nextflow, Snakemake
Cloud: AWS, Azure, Google, AliBaba
Programming Language: Java (preferred), Python, R
Source control: GitLab (preferred), Bitbucket, GitHub, TFS
Extensive analytic troubleshooting skills
Excellent communication and organizational skills, especially for problem solving under pressure
Strong technical documentation skills
Eagerness to acquire new skills in genetics
Ability to thrive in a fast-paced environment and manage multiple tasks independently
Preferred Technologies:
High performance computing on a local cluster
Bioinformatics Tools: GATK, SAMtools, bedtools, bwa, primer3, etc.
Security / Privacy: HIPAA, GDPR
Biology: Next-generation sequencing, Sanger sequencing, MLPA, PCR, Southern Blot
Data science: Machine learning, deep neural networks
What we offer:
Dynamic and supporting international teams.
Regular assessments and performance reviews. You will have the opportunity for
promotion, bonuses and a raise in accordance with the pace at which you develop and your
Remote, hybrid or office work.
20-25 vacation days per year.
Equipment for work, laptop and all necessary additions.
Access to trainings and courses.
Private health insurance.
FIT Pass card for many sports’ facilities.