COVID-19 Variants of Concern

This tutorial walks through some of the considerations of building a functioning workflow in GRAPEVNE, and provides various side-bars and discussions on aspects such as how the modules were build, how to specify the runtime environment, and how to deal with data-dependent workflows.

Note

This tutorial demonstrates the manual steps required to create modules and build a workflow from them. There are two more accessible approaches to using GRAPEVNE:

1. If you are instead interested in how to use existing modules to build workflows, then see our Build a Workflow guide.

2. If you are interested in creating a wrapper module around an existing piece of software or custom scripts, then see our Module Builder guide, which provides a graphical user interface that is suitable in most cases. If there are unique requirements that necessitate a deeper understanding of module structure, then the current tutorial is more appropriate.

Background

• Introduction
• The complete pipeline
• Inputs
• Module 1: Providing the seeds
• Module 2: Subsample alignment