1. Orientation¶
The Gitpod environment contains some test data that will be used in this workshop.
Note
Follow this link if you have not yet setup your Gitpod environment.
1.1 Getting started¶
You will complete this module in the nf-customize/
folder.
In this folder you will find three pairs of zipped fastq files (*.fastq.gz
) in a data/
folder and an example samplesheet (samplesheet.csv
) in a scripts/
folder.
.
├── data
│ ├── gut_1.fastq.gz
│ ├── gut_2.fastq.gz
│ ├── liver_1.fastq.gz
│ ├── liver_2.fastq.gz
│ ├── lung_1.fastq.gz
│ └── lung_2.fastq.gz
└── scripts
└── samplesheet.csv
Each file will be used in this training module.
Exercise
Open the Gitpod training environment and use the following command to switch to the nf-customize
folder. View the files in this folder using the tree
command:
Congratulations! You are now ready to start the workshop!