The goal of this guide is to take you through the process of structuring and populating a very basic worfklow. Work your way through this recipe step by step and end up with a worfklow which takes raw read data as input, creates quality assurance reports alongside trimmed reads, as well as generates de-novo assemblies from isolate read data.
The recipe assumes some prior knowledge of executing bash commands, making very simple scripts, positional arguments as script input, and finally utilizing virtual Conda environments to install and execute bioinformatic tools. In the end though, you will get a hang of how you can start your very own basic bioinformatic workflow.