Part VI: Workflows

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Introduction

Part I: What is MiGA?

Part II: Getting started

Part III: Interfaces

Part IV: Deploying examples

Part V: Additional details

Part VI: Workflows

CLI Workflows automate common tasks in MiGA. Currently implemented workflows include:
1.​Quality​
2.​Dereplicate​
3.​Classify​
4.​Preprocess​
5.​Index​
Using multiple workflows
It is possible to concatenate workflows in the same project. First, run the first workflow as described in the documentation. For example:
1
miga quality_wf -o my_project /path/to/genomes/*.fna
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Next, execute any additional steps without specifying the input files, and using the same output directory. For example:
1
miga classify_wf -o my_project
2
miga rerep_wf -o my_project
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In the examples above, input genomes will be processed to evaluate quality, next they'll be classified, and finally they'll be dereplicated.

External Software

Quality

Last modified 6mo ago

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Contents

Using multiple workflows