This guide presents a toolkit for writing research papers and monographs using Emacs, Org-mode and R.
Org-mode allows embedding statistical code in the document to generate results that can be revised and reproduced, integration of bibliographic references with a database, and consistent formatting without any manual tweaking using excellent support for creation of pdf, odt, docx, html and many other types of files.
https://github.com/vikasrawal/orgpaper/blob/master/orgpapers.org
Grab a PDF version here.