bbbq_header.tex

\documentclass{article}

% Just try to parse, do not ask for input
\nonstopmode

% Bibliography
% For Vancounter style:
\usepackage[numbers]{natbib}
% For regular style:
% \usepackage{natbib}


%\bibpunct{(}{)}{;}{a}{}{;}

% Use 'It was found that A is B (Name 1234)' style
%\setcitestyle{authoryear,open={},close={}}

% Affiliations
\usepackage{authblk}
\title{
  Transmembrane helices are an over-presented and evolutionarily conserved
  source of major histocompatibility complex class I and II epitopes
}


\author[1]{Richèl J.C. Bilderbeek}
\author[1]{Maksim V. Baranov}
\author[1]{Geert van den Bogaart}
\author[1]{Frans Bianchi}
\affil[1]{GBB, University of Groningen, Groningen, The Netherlands}

% Use double spacing
\usepackage{setspace}
\doublespacing

\usepackage{listings}
\usepackage{hyperref}
\usepackage{todonotes}
\usepackage{verbatim}
\usepackage{pgf}
\usepackage{bm}
\usepackage{multirow}
\usepackage{amsfonts}
\usepackage{array}
\usepackage{booktabs}
\newcolumntype{C}[1]{>{\centering\arraybackslash}p{#1}}
\newcolumntype{L}[1]{>{\raggedright\arraybackslash}p{#1}}
\usepackage{longtable}

% sidewaysfigure
\usepackage{rotating}

% Style of listings
% From http://r.789695.n4.nabble.com/
%   How-to-nicely-display-R-code-with-the-LaTeX-package-listings-tp4648110.html
\usepackage{fancyvrb} 
\definecolor{codegreen}{rgb}{0,0.6,0}
\definecolor{codegray}{rgb}{0.5,0.5,0.5}
\definecolor{codepurple}{rgb}{0.58,0,0.82}
\definecolor{backcolor}{rgb}{0.95,0.95,0.92}
\lstdefinestyle{mystyle}{
  language=R,% set programming language
  basicstyle=\ttfamily\small,% basic font style
  commentstyle=\color{gray},% comment style
  numberstyle=\scriptsize,% use small line numbers
  numbersep=10pt,% space between line numbers and code
  tabsize=2,% sizes of tabs
  showstringspaces=false,
  captionpos=b,% positioning of the caption below
  breaklines=true,% automatic line breaking
  escapeinside={(*}{*)},% escaping to LaTeX
  fancyvrb=true,% verbatim code is typset by listings
  extendedchars=false,% prohibit extended chars (chars of codes 128--255)
  alsoletter={.<-},% becomes a letter
  alsoother={$},% becomes other
  otherkeywords={!=, ~, $, \&, \%/\%, \%*\%, \%\%, <-, <<-, /},
  deletekeywords={c}% remove keywords 
}
\lstset{style=mystyle}

% Adds numbered lines
\usepackage{lineno}
\linenumbers

% Subfigures
\usepackage{subcaption}

% Subfigure numbers use uppercase, 
% from https://tex.stackexchange.com/a/278140
\renewcommand{\thesubfigure}{\Alph{subfigure}}

%comments
\newcommand{\frans}[1]{\textcolor{blue}{\textbf{[FB: #1]}}}
\newcommand{\richel}[1]{\textcolor{orange}{\textbf{[RB: #1]}}}
\newcommand{\geert}[1]{\textcolor{red}{\textbf{[GVDB: #1]}}}
\newcommand{\maksim}[1]{\textcolor{blue}{\textbf{[MVB: #1]}}}
\newcommand{\maxim}[1]{\textcolor{blue}{\textbf{[MVB: #1]}}}

\begin{document}

\maketitle

\include{bbbq_article}

\end{document}