Production-Scale Automation For Complex Genomics Workflows
Edico Genome’s Workflow Management System (WMS) enables users to easily automate their pipelines and workflows on the DRAGEN platform. The WMS integrates sequencing instruments, storage resources, compute resources and workflows with the user’s Laboratory Information Management System (LIMS), creating an end-to-end fully automated process. Users have complete transparency of their samples, lanes, and analysis statuses. The WMS is comprehensive in terms of functional capabilities and users can effortlessly automate their workflows with data from any number of sequencing instruments (of any type) and any number of samples spread across an infinite number of flow cells and lanes.
Comprehensive Project Management
The WMS utilizes a project-based system for managing data, workflows and available resources. Users can share projects within their organization or across the DRAGEN ecosystem through the management of permission-based access control rules. Each project is maintained with a strict level of security and source data can be utilized by multiple projects without the user incurring duplicate storage footprint.
Single Pane of Glass
Whether using the DRAGEN platform onsite, in the cloud or both, users are able to use a single pane of glass to control all interactions with the WMS. The DRAGEN Web Portal interface is highly responsive, intuitive and accessible via any browser on a server, laptop, tablet or smart phone. Simply drag-and-drop datasets onto workflows and complex processes are initiated.
Monitoring Automated Projects
Automating projects is quick and easy. Users begin by specifying their requirements for the transfer of data from sequencer to the WMS. A sequencer is linked up to a directory that exports all the BCL files, allowing users to monitor specific directories and choose which BCL conversion configuration or app to use. Users can also specify a default analysis app to use for all the samples produced by that sequencer, as well as identify the sequencer output directory for completed analysis files. The WMS also allows users to monitor the progress of each pipeline step of all automated workflows.
Extensive Reporting and Quality Control Metrics
An extensive report as well as Quality Control (QC) metrics for each dataset is available after the completion of the associated workflow. The reporting system includes metrics and graphical representations for mapping/aligning, variant calling, etc. as well as distribution plots, time statistics and many other visualizations that provide meaningful insights and statistics for the user. DRAGEN is able to generate these PICARD, SAMTOOLS, FLAGSTATS and RTG VCFstats type metrics as part of a standard pipeline run. These reports would traditionally take many hours in addition to the original workflow when executed in software only. In addition, the WMS produces Quality Control metrics that identify potential issues with the sample or sample preparation very early in the analysis process.
Scaling to Production Level
The WMS has been designed to scale from a small lab with a single user with a few gene panels all the way to a population-scale sequencing center with many users generating hundreds of thousands of whole human genomes each year. The system is scalable in terms of file size, number of files, number of sequencing instruments, number of users and number of DRAGEN systems and workflows. It enables production-scale, clinical-grade genomic analysis where users can effortlessly set-up and manage highly complex workflows such as joint genotyping and population calling in minutes. Many of the largest genome sequencing centers in the world use this technology to automate the analysis of tens of thousands of genomes each year.
DRAGEN Web Portal
The DRAGEN Web Portal provides a simple, intuitive and easy-to-use interface for the Workflow Management System. Users can also chose to use an API to directly control the WMS via their own scripts.
The DRAGEN Web Portal includes a fully comprehensive dashboard that enables users to check the statuses of all of there automated tasks at a glance. Each of the dashboard tiles also enables quick access to all of the system features and functionality. The dashboard is customizable and by default includes tiles for displaying lasted info on projects, analyses, data used, storage used and available applications/workflows.