main.tex

% Sarah Mubeen PhD Thesis
% University of Bonn PhD in Computational Life Sciences

%\documentclass[a4paper, openright, 12pt, twoside]{report}
\documentclass[a4paper, 12pt]{report}

\include{others/preamble}

\begin{document}

    \titleformat{\chapter}[display] %chapter headings
        {\bfseries\Huge}
        {\thechapter} % label
        {0.5ex} % sep
        {}

    \include{others/prologue}
    
    \pagenumbering{arabic} % restart page numbering with arabic numbers
    \setlength{\parskip}{1em} % set space between paragraphs
    \renewcommand{\baselinestretch}{1.2} % set line spacing

    \titleformat{\chapter}[display]	%chapter headings
      {\bfseries\Large}
      {\filright\textls{\MakeUppercase{\chaptertitlename}} \Huge\thechapter}
      {1ex}
      {\raggedright\Large}

    \input{content/introduction}

    % One or more publication per chapter according to regulations
    % see: https://www.mnf.uni-bonn.de/promotion/downloads/promotionsordnung-der-mathematisch-naturwissenschaftlichen-fakultaet-version-2011
    
    \input{content/pathway_analysis}
    \input{content/expression_patterns}
    \input{content/network_methods}
    \input{content/conclusion}
    
    \printbibliography[
        heading=bibintoc,
        title={References}
        ]
        
    \appendix
    \addtocontents{toc}{\protect\setcounter{tocdepth}{0}}
    \include{others/appendix}

\end{document}