A collection of project-related Dockerfiles for a controlled R environment with defined R packages.

If you have a new R analysis project and want to add it to the R-container-lib, please follow the process described in Rmageddon. This README assumes that you have the setup as explained in Rmageddon.

Please check the GitHub help pages for that.

As easy as:

git clone https://github.com/<yourname>/r-container-lib

This step is only necessary if you have not yet created a project using Rmageddon!
Please refer to Rmageddon .

Next, you still need to make some adjustments. The current project structure looks like this:

projects/
    projectA/
        scripts/
          myscript.R
        data/
        Dockerfile
        environment.yml     
    projectB/
        ...

Add a subfolder project[X] for your new project and copy its contents into it. Ensure that it contains a Dockerfile, an environment.yml file after the building process of Rmageddon, a data folder and finally a scripts folder with your R scripts.

If you want to finally verify that your newly added project doesn't break any requirements you can run Rmageddon lint again on it. Please refer to Rmageddon .

The only thing left is to submit a pull request or directly commit to this repository. If you don't remember git so well, this condensed cheatsheet may help Git Cheatsheet.

This repo was created by Sven Fillinger (@sven1103), Quantitative Biology Center, University of Tübingen.