Source Job

US

  • Maintain and improve software quality of genomics pipelines in an on-premise HPC environment.
  • Automate pipeline operations and provide operational support, including troubleshooting failures.
  • Implement integrations with laboratory systems and sequencing instruments like Illumina and PacBio.

Python Bash HPC Agile

20 jobs similar to Software Engineer – Bioinformatics Pipelines

Jobs ranked by similarity.

$145,000–$165,000/yr
US 3w PTO

  • Deploy and manage build systems, CI/CD pipelines, and cloud infrastructure such as AWS.
  • Drive work to completion using Jira in an Agile environment and support flight software design and release processes.
  • Collaborate with cross-functional engineers to deliver mission-critical software infrastructure and tools.

BlackSky is a real-time intelligence company providing satellite imagery, automated analytics, and high-frequency monitoring via its space-based platform. The global team is people-first, customer-focused, and fun, working with cutting-edge technology.

$80,000–$128,000/yr
US

  • Create, refine, and execute procedures for TFDM software installations at sites and in lab environments
  • Create AIMS tickets and status reports to track discrepancies, adaptations, and installation progress
  • Collaborate with teammates, site personnel, and vendors to resolve installation and operational issues

Peraton is a next-generation national security company that drives missions of consequence spanning the globe. As a leading mission capability integrator, it delivers trusted solutions to protect our nation and allies.

US

  • Architect and build scientific software, developer tooling, and delivery systems using Python and C++.
  • Own CI/CD, reproducible build and packaging pipelines, and container patterns for high-performance computing workflows.
  • Establish engineering standards, mentor engineers, and ensure software quality assurance through design and code review.

Kairos Power is a new nuclear energy technology company commercializing the fluoride-salt-cooled, high-temperature reactor (FHR) to enable the world's transition to clean energy. They are a collaborative, safety-conscious team that values simple, maintainable software and equal opportunity.

$119,000–$163,000/yr
US

  • Develop and validate new algorithms to analyze large multimodal epigenomic datasets
  • Drive research analyses through implementation, testing, and performance evaluation
  • Partner with molecular biologists and clinical scientists to solve challenging, open-ended problems

Natera is a global leader in cell-free DNA testing, dedicated to oncology, women's health, and organ health. The team consists of highly dedicated professionals from world-class institutions who care deeply for their work and each other.

$120,000–$140,000/yr
Eastern Europe

  • Design and deliver backend features in Python for large-scale enterprise SaaS.
  • Manage and optimize data pipelines that transform high-volume sensor streams into clean, structured time-series events.
  • Build integrations and configuration systems for enterprise customers, ensuring correctness under concurrency.

Arch Systems builds ArchFX Cloud, a platform that processes millions of IoT data points daily from factory machines to help manufacturers optimize efficiency, sustainability, and growth. The company champions a remote-first, asynchronous culture with significant ownership and autonomy.

US

  • Implement new features across frontend/backend boundaries.
  • Troubleshoot production issues and identify/ship fixes.
  • Collaborate with engineers and designers to maintain a large codebase.

General Dynamics Mission Systems engineers a diverse portfolio of high technology solutions, products and services that enable customers to successfully execute missions across all domains of operation. With a global team of 12,000+ top professionals, the company values trust, honesty, alignment and transparency.

$85,000–$115,000/yr
US

  • Build and scale automated data pipelines across analytics, legal, and commissions.
  • Integrate CRM, billing, and finance systems using custom APIs and data pipelines.
  • Ship and maintain internal applications and deploy containerized AWS services.

LeanTaaS builds AI-powered software that helps hospitals optimize capacity by reducing wait times and costs. With over $300 million in funding from top investors, the company serves more than 190 health systems and employs a culture focused on innovation and operational excellence.

US

  • Own the design, build, and improvement of Ironclad workflows, approvals, and data across every agreement type.
  • Build and maintain integrations between Ironclad and HubSpot, Ramp, Hex, and other business systems using APIs.
  • Develop contract and SLA dashboards, automate manual workflows, and secure AI connections across business systems.

Higgsfield AI builds cutting-edge generative AI video creation tools and creative platforms. It is a fast-scaling company with 30M+ users, powering 390 Fortune 500 brands, and a high-impact, fast-moving team.

US Unlimited PTO 12w maternity 12w paternity

  • Own the full onboarding lifecycle from requirements gathering to post-launch review.
  • Manage data imports, integrations, and configurations to align systems with customer needs.
  • Collaborate with product, engineering, and support teams to troubleshoot and optimize implementation processes.

Cordance accelerates growth of B2B SaaS companies through acquisition and long-term tactical and financial guidance. Its Campus Kaizen unit provides case management software for K-12 and higher education institutions.

UK

  • Lead DevOps and automation modernisation across IBM Z and distributed platforms in a global enterprise environment.
  • Design production-grade automation, CI/CD pipelines, compliance controls, and observability solutions using Python, YAML, and Ansible.
  • Mentor engineers, drive engineering best practices, and strengthen governance, security, and audit readiness.

HelloKindred is a staffing specialist for marketing, creative, and technology roles, offering on-site, remote, or hybrid talent solutions. They are committed to fair, transparent, and inclusive hiring practices.

India

  • Design and maintain data engineering pipelines for healthcare and biopharmaceutical data.
  • Implement healthcare data integration including DICOM metadata extraction and PACS/VNA.
  • Build regulatory-compliant architectures and MCP tools for automated processes.

Jobgether is an AI-powered job platform that matches candidates with suitable roles. The culture emphasizes efficient, fair hiring and inclusive workplaces.

US

  • Develop and maintain web-based software for biomedical data discovery and visualization.
  • Integrate a natural-language conversational AI system into biomedical data portals for querying and understanding complex biological data.
  • Participate in the full software development life cycle, including testing, documentation, and code reviews.

Harvard University is a prestigious research university dedicated to education and discovery. Its HIDIVE Lab in Biomedical Informatics develops AI and data visualization tools to help scientists understand complex biomedical data, fostering a collaborative and interdisciplinary culture.

US

  • Install and upgrade HealthEdge applications across private cloud, AWS, and customer-hosted instances.
  • Use agile deployment methodologies and automation tools to manage SaaS-hosted environments.
  • Troubleshoot issues collaboratively and communicate with senior management on high-visibility assignments.

HealthEdge provides a digital foundation for healthcare payers with integrated solutions including claims administration, business intelligence, and integration capabilities. The company is committed to an inclusive workplace and building diverse teams.

$101,800–$127,300/yr
US

  • Analyze high-throughput DNA sequencing datasets using cancer biology and genomics expertise.
  • Implement and validate novel algorithms and statistical methods for cancer recurrence monitoring.
  • Collaborate with molecular biologists and bioinformatics scientists to answer key biological questions.

Natera is a global leader in cell-free DNA testing, dedicated to oncology, women's health, and organ health. The team includes highly dedicated scientists, engineers, and business professionals from world-class institutions who care deeply about their work and each other.

$90,000–$100,000/yr
US

  • Design and build automation solutions to improve software delivery and operational efficiency.
  • Develop internal tools, integrations, and self-service capabilities for engineering teams.
  • Build and enhance CI/CD pipelines and deployment processes.

CareCentrix is a healthcare company that coordinates home-based care for patients. The company has an award-winning culture that values caring, integrity, and thinking big.

$80–$95/hr
United States

  • Deliver REST API integrations with Databricks for healthcare data.
  • Develop in Python and C#/.NET using healthcare standards like HL7 and FHIR.
  • Work fully remotely with a lead engineer and customer stakeholders.

OnTrac provides software engineering contractor services, focusing on healthcare and pharmacy benefit management projects. The company is staffing a small team of three to four engineers, emphasizing hands-on work and collaboration.

Unlimited PTO

  • Build and maintain first-party integration connectors between NodeZero and customer security platforms like CrowdStrike, SentinelOne, and Splunk.
  • Design integration schemas and data mappings, and write documentation that enables customers to configure integrations without support calls.
  • Diagnose and resolve integration failures, working with the Integrations Platform team to ensure connectors are built on shared infrastructure.

Horizon3 is a cybersecurity company that provides autonomous pentesting through its NodeZero platform to help organizations proactively find and fix attack vectors. The company is a remote team of former U.S. Special Operations cyber operators and engineers, fostering a culture of respect, collaboration, and ownership.

US

  • Develop expert-level knowledge of pathway analysis, genomics, and multi-omics bioinformatics software.
  • Deliver tailored demonstrations, workshops, and training to help scientists derive insights from NGS data.
  • Collaborate with sales, marketing, and product teams to support customer relationships and innovation.

The company provides bioinformatics software for pathway analysis and next-generation sequencing, helping researchers turn complex datasets into insights. It fosters a collaborative, dynamic scientific culture with multidisciplinary teams and remote-first flexibility.

$146,000–$225,000/yr
US Unlimited PTO

  • Break down larger projects into individual tasks and deliver them in phases with support from your tech lead and manager.
  • Collaborate with product management, design, and analytics to make decisions that consider risks and trade-offs.
  • Support operations and availability of your team's artifacts by creating metrics and participating in on-call efforts.

Affirm is a financial technology company that provides transparent, flexible payment solutions. The company is remote-first and fosters a culture of care, transparency, and flexibility.

US

  • Design realistic software engineering challenges to assess AI models' coding abilities.
  • Build reference solutions and automated verification tests to ensure correctness.
  • Work independently on a fully remote, contract basis with flexible scheduling.

Jobgether is an AI-powered job matching platform that connects candidates with hiring companies through objective, AI-driven reviews. The company focuses on efficient hiring and shares top-fitting candidates directly with employers, with a culture emphasizing data privacy and fair evaluation.