SUMMARY.md

Table of contents

• MiGA Container Manual

MiGA Docker

• MiGA Docker
  • Installing Docker Engine for Windows
  • Installing Docker Engine for Mac OS
  • Installing Docker Engine for Linux
  • Creating the MiGA Container
    • Locally Using Docker Commands
    • Installing MiGA using Singularity
  • Starting & Stopping MiGA Docker

MiGA Docker Projects

• MiGA Projects
• Get Example Data

Reference Databases

• Add a Reference Database (Optional)
  • Add Reference Databases using MiGA-Web
  • Add Reference Databases from the Command Line

MiGA Docker Web Projects

• Create A Genome Project
• Classifying Genomes
  • Using Your Own Project
  • Using a Reference Database
• Create a Clade Project
• Assemble a Genome

MiGA Docker-CLI Projects

• Introduction
• Create a Genome Project
• Classifying Genomes
  • Using Your Own Project
  • Using a Reference Database
• Create a Clade Project
• Assemble a Genome

Scripts for Cluster Projects

• Installing TypeMat_Lite
• Submit a Genomes Project
• Add a Query Sequence to a Genomes Project
• Add Classification to a Genome Project
• Submitting a Genome Project with Classification
• Submitting a Clade Project
• Submitting an Assembly Project
• Submitting Large Jobs

Exploring Results

• Exploring Results

MiGA AWS

• MiGA AWS
  • Create an AWS Account
  • Create a Key Pair
  • Create a MiGA Instance
  • Starting & Stopping the MiGA Instance
  • Troubleshooting MiGA AWS

MiGA-AWS CLI Projects

• Introduction
• Get Example Data
• Create a Genome Project
• Classifying Genomes
  • Using Your Own Project
  • Using a Reference Database
• Create a Clade Project
• Assemble a Genome