Input data

MiGA Manual

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Introduction

Part I: What is MiGA?

Part II: Getting started

Part IV: Deploying examples

Part V: Additional details

Part VI: Workflows

Input data

MiGA datasets can be created from three different points: Raw reads, Trimmed reads, and Assemblies.
The input files can be added through the CLI using miga add or any of the available workflows. Files can also be added through the Web interface.
Raw reads
Raw (unprocessed) sequencing reads. MiGA can handle different sequencing technologies, but it has been optimized for short reads.
Format: FastQ, optionally gzipped (with .gz extension)
Workflow step: Raw reads​
Trimmed reads
Sequencing reads already processed to remove low quality or other artifacts. MiGA can handle different sequencing technologies, but has been optimized for short reads.
Format: FastA, optionally gzipped (with .gz extension)
Workflow step: Trimmed FastA​
Assemblies
Assembled contigs/scaffolds. Ideally, but not necessarily, sequences longer than 1 Kbp.
Format: FastA, optionally gzipped (with .gz extension)
Workflow step: Assembly​

MiGA types

Distances

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Outline

Raw reads

Trimmed reads

Assemblies