Daniel J. Hocking (dhocking@usgs.gov), US Geological Survey, Conte Anadromous Fish Research Center, Turners Falls, MA, USA
Set up the problem. Explain how you solve it. Tell what you find. Explain why it's the best thing ever.
Background and problem setup [@Hocking2014a; @Hocking2014]
Relevant literature [@Hocking2013; @Hocking2013f]
Objectives/hypotheses
Describe what you did so it can actually be repeated. I don't want to see everything in the supplementary materials. Here's an example of using LaTeX to add equations:
Explain what you found. Avoid blind P-values (or avoid P-values altogether)
Give context to what you found. Relate it to previous work. Describe why it's the most important scientific finding of the decade, yet avoid hyperbole. Easy, right?
Thanks to Ethan White, Karthik Ram, Carl Boettiger, Ben Morris, and Software Carpentry for getting me started with the skills needed to ditch MS Word and produce more reproducible research.
Table 1: Example Markdown table
+--------------+-------+-----+---------+--------+------------+ |Name |col2 |col3 |col4 |col5 |Comments | +==============+=======+=====+=========+========+============+ |Brook Trout |1 |big |few |2.2 |Ecology & | | | | | | |life history| | | | | | |data | | | | | | |associated | | | | | | |with trout | +--------------+-------+-----+---------+--------+------------+ |Desmognathus|100 |small|many |0.3 |Widespread | |fuscus | | | | |salamander | | | | | | |species | +--------------+-------+-----+---------+--------+------------+
Figure 1. Example of adding a figure.