EDGE
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  • 1. EDGE ABCs
  • 2. Introduction
  • 3. System requirements
  • 4. Installation
  • 5. Graphic User Interface (GUI)
  • 6. Command Line Interface (CLI)
  • 7. Output
  • 8. Databases
  • 9. Third Party Tools
  • 10. FAQs and Troubleshooting
  • 11. Copyright
  • 12. Contact Us and Citation
EDGE
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  • EDGE: Empowering the Development of Genomics Expertise
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EDGE: Empowering the Development of Genomics ExpertiseΒΆ

  • 1. EDGE ABCs
    • 1.1. About EDGE Bioinformatics
    • 1.2. Bioinformatics overview
    • 1.3. Computational Environment
  • 2. Introduction
    • 2.1. What is EDGE?
    • 2.2. Why create EDGE?
  • 3. System requirements
    • 3.1. Hardware Requirements
    • 3.2. Ubuntu 18.04
    • 3.3. CentOS 7
  • 4. Installation
    • 4.1. EDGE Installation
    • 4.2. Configure SELinux on CentOS
    • 4.3. EDGE Docker image
  • 5. Graphic User Interface (GUI)
    • 5.1. User Login
    • 5.2. Upload Files
    • 5.3. Initiating an analysis job
    • 5.4. Choosing processes/analyses
    • 5.5. Submission of a job
    • 5.6. Checking the status of an analysis job
    • 5.7. Monitoring the Resource Usage
    • 5.8. Management of Jobs
    • 5.9. Project List Table
    • 5.10. Other Methods of Accessing EDGE
  • 6. Command Line Interface (CLI)
    • 6.1. Configuration File
    • 6.2. Test Run
    • 6.3. Descriptions of each module
    • 6.4. Other command-line utility scripts
  • 7. Output
    • 7.1. Example Output
  • 8. Databases
    • 8.1. EDGE provided databases
    • 8.2. Building bwa index
    • 8.3. SNP database genomes
    • 8.4. Ebola Reference Genomes
  • 9. Third Party Tools
    • 9.1. Assembly
    • 9.2. Annotation
    • 9.3. Alignment
    • 9.4. Taxonomy Classification
    • 9.5. Phylogeny
    • 9.6. Specialty Genes
    • 9.7. Metagenome
    • 9.8. Visualization and Graphic User Interface
    • 9.9. Utility
    • 9.10. Amplicon Analysis
    • 9.11. RNA-Seq Analysis
  • 10. FAQs and Troubleshooting
    • 10.1. FAQs
    • 10.2. Troubleshooting
    • 10.3. Discussions / Bugs Reporting
  • 11. Copyright
  • 12. Contact Us and Citation
    • 12.1. Citation
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© Copyright 2014-2019, EDGE Development Team Revision d45a8d83.

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