COWID

COWID identifies SARS-CoV-2 and its variants using scalable cloud-based genomics workflows for rapid variant detection and analysis.

Key Features:

• Cloud-Based Scalability: Processes large volumes of sequencing data on a cloud infrastructure to support high-throughput analysis.
• Common Workflow Language (CWL) Integration: Built on CWL to provide workflow flexibility and interoperability across computational environments.
• Efficient Parallelization: Leverages cloud computing for parallel processing, enabling typical per-sample processing times of approximately 5 minutes.
• Cost-Effectiveness: Operates at an approximate cost of US$0.01 per sample.
• Reliability and Accuracy: Produces variant findings for SARS-CoV-2 reported with no false-positive results.
• Repurposed Cancer Genomics Platform: Adapted from a cloud platform originally developed for cancer genomics research to meet viral genomics requirements.

Scientific Applications:

• SARS-CoV-2 identification and variant analysis: Rapid detection and characterization of SARS-CoV-2 and its variants from sequencing data.
• High-throughput genomic surveillance: Scalable processing of large datasets for pandemic-scale genomic monitoring and transmission analysis.

Methodology:

Repurposes a cloud platform originally developed for cancer genomics, integrates workflows using the Common Workflow Language (CWL), and applies efficient parallel processing on cloud infrastructure.