In development

This repository is in active development. This document describes the Colorado Department of Public Health and Environment’s workflow for the assembly and anlaysis of whole genome sequenicng data of influenza A and B ulitizing the platform. The pipeline consists of two workflows: influenza_assembly.wdl and influenza_assembly_summary.wdl. The first performs the assembly on each sample (entity = sample). The second generates a summary file that includ

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