Temporary Bioinformatics Pipeline Assistant in , us

Energy Jobline ATTB; Us; On-site; EUR 35,000 - 44,000; Part time

Job summary

The Brown Cancer Center Bioinformatics Core is seeking a part-time temporary worker to help automate existing computational biology pipelines. The role focuses on refactoring RNA-Seq, DNA-Seq, ChIP-Seq, single-cell, and long-read workflows, with automated execution on HPC clusters and version control via GitHub.

Collaboration with Core members and the Principal Investigator is essential. Qualifications include a degree in Computer Science and Engineering, proficiency in Python/R/Bash, Unix/Linux

Qualifications

• Degree in Computer Science and Engineering.
• Proficiency in scripting languages (Python, R, or Bash).
• Familiarity with Unix/Linux command-line environments.
• Understanding of software engineering best practices: version control, modular design, documentation, and testing.
• Experience with containerization (Docker/Singularity) and/or HPC/cluster computing.
• Prior exposure to bioinformatics or large datasets.

Responsibilities

• Refactor and automate bioinformatics pipelines to improve reproducibility.
• Convert ad hoc analysis scripts into modular workflows.
• Set up automated execution on HPC clusters, including job scheduling and dependencies.
• Add error handling, logging, and testing to pipelines.
• Use GitHub to manage code and coordinate with Core members and PI.

Skills

Python

R

Bash

Unix/Linux

Git

Documentation

Education

Degree in Computer Science and Engineering

Tools

Docker

Singularity

HPC/Cluster computing

Job description

Bioinformatics Core Temporary Worker

The Brown Cancer Center Bioinformatics Core is seeking a part‑time (10 hours per week) temporary worker to help automate existing computational biology pipelines. The position will last for approximately 6 months.

Essential Duties

• Refactor and automate existing bioinformatics pipelines (e.g., RNA-Seq, DNA-Seq, ChIP-Seq, single-cell, and long-read sequencing workflows) to improve reproducibility and reduce manual steps.
• Convert ad hoc analysis scripts into modular, parameterized, and well‑documented workflows.
• Set up and maintain automated execution on high‑performance computing (HPC) clusters, including job scheduling and dependency management.
• Add error handling, logging, and basic validation/testing to existing pipelines.
• Use version control (e.g., GitHub) to manage code.
• Communicate progress regularly and troubleshoot issues in coordination with Core members and the Principal Investigator.

Qualifications

• Degree in Computer Science and Engineering.
• Proficiency in at least one scripting/programming commonly used in data pipelines (Python, R, and/or Bash).
• Familiarity with Unix/Linux command‑line environments.
• Understanding of software engineering best practices: version control, modular design, documentation, and testing.
• Experience with containerization (Docker/Singularity) and/or HPC/cluster computing.
• Prior exposure to bioinformatics, computational biology, or handling large scientific datasets.

Competencies

• Strong problem‑solving skills, attention to detail, and the ability to work both independently and collaboratively.
• Good written and verbal communication skills.

Compensation

Compensation will be commensurate to candidate experience.

Equal Employment Opportunity

The University of Louisville is an Equal Employment Opportunity employer. The University strives to provide equal employment opportunity on the basis of merit and without unlawful discrimination on the basis of , sex, , , , , creed, , disability, genetic information, , , or expression, veteran status, marital status, or . In accordance with the Rehabilitation Act of 1973 and the Vietnam Era Veteran Readjustment Act of 1974, the University prohibits job discrimination of individuals with disabilities, Vietnam era veterans, qualified special disabled veterans, recently separated veterans, and other protected veterans. The University acknowledges its obligations to ensure affirmative steps are taken to ensure equal employment opportunities for all employees and applicants for employment. It is the policy of the University that no employee or applicant for employment be subject to unlawful discrimination in terms of recruitment, hiring, promotion, contract, contract renewal, tenure, compensation, benefits, and/or working conditions. No employee or applicant for employment is required to endorse or condemn a specific ideology, political viewpoint, or social viewpoint to be eligible for hiring, contract renewal, tenure, or promotion.Consistent with applicable law, demographic information is collected for aggregate reporting requirements. Demographic information provided through this application is not available to hiring managers/committees and is not considered in hiring or employment decisions.

Assistance and Accommodations

Computers are available for application submission at the Human Resources Department located at 2315 South First Street Walk, Room 02C - Louisville, Kentucky 40292. If you require assistance or accommodation with our online application process, please contact us by email at [e-mail] or by phone [phone].