An excellent and short book on developing an efficient and reproducible approach to statistical analysis: http://www.kirchkamp.de/oekonometrie/pdf/wf-screen2.pdf

It covers practical topics like how to organize your files, how to structure your R scripts, dealing with computational steps that take a long time, and working on analyses and writing with co-authors.

The author’s introduction: “Workflow of empirical work may seem obvious. It is not. Small initial mistakes can lead to a lot of hard work afterwards. In this course we discuss some techniques that hopefully facilitate the organisation of your empirical work…”