Markdown_for_Manuscripts_ms.md

Catchy Title that Reviewers will Love

Daniel J. Hocking and Names of Awesome Coauthors

Daniel J. Hocking (dhocking@usgs.gov), US Geological Survey, Conte Anadromous Fish Research Center, Turners Falls, MA, USA

Abstract

Set up the problem. Explain how you solve it. Tell what you find. Explain why it's the best thing ever.

Introduction

Background and problem setup [@Hocking2014a; @Hocking2014]

Relevant literature [@Hocking2013; @Hocking2013f]

Objectives/hypotheses

Methods

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:

$$ T_s = \mu + \frac{\alpha - \mu}{1 + e^{\gamma(\beta - T_a)}} $$

Results

Explain what you found. Avoid blind P-values (or avoid P-values altogether)

Discussion

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?

Acknowledgements

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.

Tables

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 | +--------------+-------+-----+---------+--------+------------+

Figures

Figure 1. Example of adding a figure.

Literature Cited