This repo holds a cookiecutter template for reproducible analysis with R at QBiC.
You can easily create an R container from the template with cookiecutter, a Python command-line tool for the creation of projects from templates. Just use pip (https://pip.pypa.io/en/stable/) to install it:
$ pip install cookiecutter
In order to create a project from the rmageddon-cookiecutter, just type:
$ cookiecutter https://github.com/qbicsoftware/rmageddon-cli
r_version [3.2.4]:
author_name [Sven Fillinger]:
author_email [[email protected]]:
container_version [0.1dev]:
project_code [QABCD]:
description [Put a short analyses description here]:
As you see, the command line will prompt you for some information. If you just hit <enter>, it will take the default value (In brackets).
Cookiecutter will replace placeholders with the information you provided and you get a ready base R project layout like this:
├── QABCD
│ │ ├── data
│ │ │ └── input_data
│ │ ├── Dockerfile
│ │ ├── environment.yml
│ │ └── scripts
│ │ └── example.R
The environment.yml file can be used for Rmageddon-build if you are not using your own anaconda environment file.
This template was created by Sven Fillinger @sven1103, QBiC, University of Tübingen.
I want to thank the creators of cookiecutter for this amazing templating tool!