Pipelines

Pipelines by Seqera is a comprehensive platform for developing, managing, and optimising Nextflow workflows at scale. Designed for life sciences and data-intensive organisations, it enables teams to run production-ready Nextflow pipelines on their own data and infrastructure, with full observability at every level — from individual tasks to organisation-wide resource usage. Customers have reported a 24% reduction in workflow execution time, 5x faster data analysis turnaround, and 50% less time spent on workflow management.

Seqera Pipelines is built for teams that require reproducibility, auditability, and governance without sacrificing speed or flexibility. By centralising pipeline execution, monitoring, debugging, and reporting in a single interface, it eliminates operational silos and reduces the overhead typically associated with large-scale bioinformatics workflows.

Core Execution and Monitoring Capabilities

• Simple Pipeline Execution: Launch Nextflow pipelines across any supported infrastructure through the intuitive Launchpad interface.
• Real-Time Monitoring: Follow pipeline executions live with dynamic progress bars and comprehensive status monitoring accessible from anywhere.
• Comprehensive Run Details: Access detailed metrics, logs, configuration settings, and task-level information all centralised in one streamlined interface.
• Comprehensive Run Tracking: Every pipeline execution is automatically monitored end-to-end, with detailed task status and execution metadata captured without manual effort.
• Advanced Search and Filtering: Quickly locate specific runs across workspaces with powerful search capabilities for easy retrieval and historical analysis, including a searchable run history to support reproducibility and auditability.

Task-Level Insights and Debugging

• Task-Level Insights: Access extensive task details, resource metrics including CPU, memory, wall time, and costs, along with interactive plots for performance optimisation.
• Effortless Debugging and Troubleshooting: Failed tasks are clearly highlighted with plain text errors reported directly in the platform. Debug faster by downloading logs or using the built-in data browser without switching tools.
• Intelligent Caching and Resume: Resume failed runs without re-executing successful tasks, eliminating redundant computation and reducing turnaround times.

Resource Optimisation and Performance

• Pipeline Resource Optimisation: Leverage resource usage data from previous runs to automatically optimise subsequent pipeline executions and reduce costs.
• Historical Performance Data: Intelligently configure resource settings for future runs based on accumulated execution history.

Reporting, Visualisation, and Data Management

• Built-in Report Visualisation: Visualise and download pipeline reports in formats such as HTML, PDF, and TXT directly in the platform, without retrieving files from remote storage.
• Integrated Data Management: Work seamlessly with datasets and samplesheets using built-in CSV/TSV support that minimises errors and ensures reproducible workflows.
• Configuration Management: View and manage Nextflow configurations, parameters, and settings with copy and download options available in multiple formats including Groovy, JSON, and YAML.

Governance, Compliance, and Container Visibility

• Enterprise-Ready Governance: Built-in role-based access control (RBAC), usage reporting, and audit logs provide governance for regulated environments while enabling team autonomy and collaboration.
• Container Visibility: Access container metadata including usage details, build provenance, and security scans, supporting compliance and reproducibility requirements.
• Centralised Visibility and Control: Gain real-time visibility into every pipeline run, resource usage, and costs across teams, with complete traceability and no additional operational overhead.

Seqera Pipelines is suitable for enterprise and regulated environments, offering deployment on your own infrastructure with integrations across a wide range of compute environments. Its combination of AI-assisted resource optimisation, built-in governance features, and end-to-end observability makes it a robust choice for organisations looking to scale Nextflow-based data analysis workflows reliably and efficiently.