RMarkdown template for CI workshop abstract

ci_abstract.tex

\documentclass[11pt,twocolumn,twoside]{IEEEtran}
\usepackage{amsmath}
\usepackage[pdftex]{epsfig}
\usepackage{amsfonts}
\usepackage{amssymb}
\usepackage{fancyhdr}
\include {graphicsx}
\usepackage[unicode=true]{hyperref}
\usepackage{setspace}
\usepackage{longtable}
\usepackage{epigraph}
\usepackage{csquotes}
\usepackage{fixltx2e}

\usepackage{graphicx}% http://ctan.org/pkg/graphicx
\usepackage{amsmath}% http://ctan.org/pkg/amsmath
\makeatletter
\newcommand{\distas}[1]{\mathbin{\overset{#1}{\kern\z@\sim}}}%

\newcommand{\indep}{\rotatebox[origin=c]{90}{\models}}
\newcommand{\norm}[1]{\left\lVert#1\right\rVert}
\newcommand\independent{\protect\mathpalette{\protect\independenT}{\perp}}
\def\independenT#1#2{\mathrel{\rlap{#1#2}\mkern2mu{#1#2}}}


\pagestyle{fancy}
%\renewcommand{\headrulewidth}{0pt}
\renewcommand{\footrulewidth}{0pt}
\renewcommand{\href}[2]{#2\footnote{\url{#1}}}
\rhead{\includegraphics[height=0.6in]{CITransparentwithTitleForWeb.png}}
\fancyhead[LO]{\sc $shorttitle$} % shorter form of title to fit in space
\fancyhead[LE]{\sc $shortauthors$} % author list or et al., to fit in space
\chead{}
\cfoot{}

\begin{document}
\title{\vspace{0.2in}\sc $title$}
\author{$authors$ \thanks{$authorinfo$}}

\maketitle
\thispagestyle{fancy}


$if(abstract)$
\begin{abstract}
$abstract$
\end{abstract}
$endif$


$body$

\bibliographystyle{ieeetr}
\bibliography{bibfile,benherzog}

\end{document}

output:
  pdf_document:
    template: ci_abstract.tex

http://rmarkdown.rstudio.com/developer_document_templates.html

Special fields: shorttitle, shortauthors (these are shown at the tops of each page), and authorinfo (were e.g. affiliations go).