I use LaTeX and R (on Slackware GNU/Linux) to achieve reproducible research.
Current setup
Typesetting/Referencing: LuaLaTeX/XeLaTeX, biber, biblatex, biblatex-apa, memoir
Statistics: R, knitr
R Packages: RMySQL, psych, reshape2, ggplot2, lmer
Editor: Emacs/ESS/AUCTeX
