timothy-barry / nf_docker_demo

A demo Nextflow script using a simple Docker image.

nf_docker_demo

A repo containing a simple Nextflow pipeline. There are several ways to run this pipeline:

1. With or without the docker image. To use the Docker image, use the flag -with-docker timbarry/nf_docker_demo:1.0. If not using the Docker image, be sure to have the following dependences installed:

• R (>= 4.0.0)
• broom
• dplyr
• magrittr

2. From a cached repo or a cloned repo. To download the pipeline automatically from Github and run the cached version, use nextflow run timothy-barry/nf_docker_demo -r main. Otherwise, git clone the repo, cd into the cloned directory, and run the pipeline via nextflow run main.nf.

For example, to download the repository automatically from Github and run it with docker: nextflow run timothy-barry/nf_docker_demo -r main -with-docker timbarry/nf_docker_demo:1.0.