Bioinformatics Software Engineer

at Apex Systems Inc

location Gaithersburg, Maryland

Updated on Mar 26, 2020

Contract Position
8 month(s)

  • Referral Bonus

    $770

    approx.
  • Signing Bonus

    $770

    approx.

Pay Rate $77.00 per hour

Experience 7-12 Years

Eligibility H-1B visa, US citizen

Industry

Information Technology Services

Travel

Not Specified

Job ID

PATDC706217

Working Remotely Allowed

No

JOB DESCRIPTION

Primary Skills: Amazon Web Services (AWS) Python

Bioinformatics Software Engineer
We are looking for a software engineer to support the bioinformatics team in our T-cell therapy group where we are developing personalized T-cell treatments to combat cancer. Our group has a direct impact on providing cutting-edge solutions to patients.  Bioinformatics plays a key role in this therapeutic platform for identifying cancer targets and tumor active T-cells. We are looking for a software engineer who can help us achieve our commitments towards ensuring that we product well engineered, robust, and state of the art pipelines. The software engineer would have a passion for developing and integrating distributed computational solutions in biotechnology, cloud-based automation, and implementing best programming practices.   

Roles and responsibilities: 
Convert serial computational pipelines into robust distributed pipelines using CWL in Seven Bridges platform and in AWS, as well as using NextFlow in AWS
Develop cloud-based data infrastructure capabilities in AWS. For example, design workstreams leveraging S3, EC2, AWS Batch, Lambda, and DynamoDB
Convert development code into productionized bioinformatics pipelines with a focus on optimization, distributed processing, modularity, and parameterization  
Create unittesting frameworks for essential pipelines and code development
Create tools for automatically moving data to AWS and Seven Bridges, deploying specific pipelines, organizing data tagged with metadata to make data FAIR

Requirements:
At least 2-3 years experience developing production level code and a strong foundation in Python including package development and unit testing
Experienced in creating and deploying Docker images and working on AWS.

Desirable:
General knowledge of methods used in biotechnology, next generation sequencing, and developing bioinformatics pipelines
At least 1 year experience developing pipelines using a workflow language such as CWL, nextflow, WDL, or snakemake
Experience with Ansible to automate deployment and configuration

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