TL;DR

Get started by following these steps to set up a new article or these steps to join an existing project.

Description

This is a template for an RStudio project using R Markdown to generate LaTeX files for synchronization with Overleaf. It is meant to minimize setup time when starting new scientific papers.

I used a method similar to the one used by this template for syncing locally to Overleaf, when writing the first paper meant for inclusion in my PhD thesis. (For anyone interested in the specifics, the setup script I used can be found here.) My hope is that this template will simplify setup of the following articles during my PhD studies.

My ambition is to keep adding automation scripts and documentation—both related to the template itself and to the writing process as a whole—in this wiki. Using it as a notebook of sorts, mainly for my own benefit.

Since the project is meant as a template, the readme and license files will likely be changed in projects based on the template. Documentation is therefore kept in this wiki to allow it to be accessed and updated independently of any instances created from the template.

Usage

This section describes where to find information on how to work with the template.

Setup

To get started, see Setup: New Article.

Writing

After having set up you article, see Following the GitHub Flow for a suggestion on how to efficiently use the template.

Common Tasks

During the writing process you might want to perform one or more of the following tasks.

Handling References

See Working With Citations for a description on how to handle citations using Zotero.

Importing Data for Analysis

See How to Import Data for Analysis for a description on how to import data for analysis.