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:
E
mpowering the
D
evelopment of
G
enomics
E
xpertise
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EDGE:
E
mpowering the
D
evelopment of
G
enomics
E
xpertise
ΒΆ
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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