Launching the nf-core/rnaseq pipeline using the test example

We will be running a test example in this course. The test profile comes with the pipeline itself. Details on input files used can be found in the piepline’s test config file.

1. Change directory and list contents

Change to the nf_core_launchdirectory using the command cd nf_core_launch in the terminal.

Inspect the content of this directory by using the command ls -l in the terminal.

2. Start the nf-core/rnaseq pipeline run

Start the nf-core/rnaseq pipeline run using the command bash nf_command_test.shin the terminal. This executes the nextflow command in the bash (.sh) script.

Comments

Note that the nextflow command in bash script nf_command_example.shis only an example command and can not be executed.