example1.md

title	abstract	author	bibliography	csl	link-citations	documentclass	fontsize	geometry	header-includes	urlcolor	output
Really Cool Title	A mind-blowing abstract.	First Name Second Name Third Name	./res/bib/bibliography.bib	./res/csl/ecology.csl	true	article	12pt	margin=1.0in	\usepackage{times} \usepackage[mathlines,displaymath]{lineno} \linenumbers	blue	pdf_document toc number_sections

Introduction

Test citation [@Waples2015]

Second test citation by @Waples2015

Inline math $a^2 + b^2 = c^2$

Math on it's own line: $$a^2 + b^2 = c^2$$

Math on it's own line with automatic numbering: $$a^2 + b^2 = c^2$$ {#eq:description}

Referring to equation @eq:description

Methods

Results

Discussion

References

If everything is setup correctly, references are automatically appended to the end of the document