ViromeXplore

Source code is available on Github

Contents:

• Installation
  • Conda Installation
  • System Installation
  • System Requirements
• Workflow Overview
• Running ViromeXplore
  • Running the Workflows
  • Mandatory Arguments
  • Optional Arguments
  • Tool-Specific Parameters
  • Custom Database Arguments
  • Available Pipelines
• Tutorial: Analyzing a Virome Dataset with ViromeXplore
  • Quality Control and Classification
  • Viral Assembly
  • Identify Viral Sequences
  • Extend Incomplete Genomes
  • Taxonomic Annotation
  • Directory structure
• Troubleshooting
  • Singularity/Docker Container Download Issues
  • Only Forward Reads Are Passed to Workflows
  • Input File Naming
• Tools and Databases