thesis.tex

\documentclass[
    11pt,
	colorful,
	boxey,
	a4paper,
]{tufte-style-thesis}

%	package inclusions for this specific documentation file. the .cls does not neet them.
\usepackage{lipsum}		% the chad package
\usepackage{pdfpages}
\usepackage[super]{nth} % for the superscripted "th"
\usepackage{xspace}     % For the \metaDMG macro
\usepackage{siunitx}	% for the \SI macro
\usepackage{tikz}
\usepackage{tikzscale}
\usepackage{subcaption}
\usepackage{datetime2}
\usepackage[danish,british]{babel}


% \usepackage[			% use biblatex for bibliography
% 	backend=biber,      % use biber or bibtex backend
%     style=authoryear,   % choose style
% 	natbib=true,		% allow natbib commands
% 	hyperref=true,	    % activate hyperref support
% 	alldates=year,      % only show year (not month)
% 	sorting=ynt,        % sort cites by year
% 	sortcites,
% 	url=false,
% ]{biblatex}


% For expectation values
\newcommand{\EX}[1]{\mathbb{E}\left[{#1}\right]}
\newcommand{\VarX}[1]{\mathbb{V}\left[{#1}\right]}

\newcommand{\metaDMG}{\texttt{metaDMG}\xspace}

\renewcommand{\chapterautorefname}{Chapter}
\renewcommand{\sectionautorefname}{Section}

\DeclareMathOperator*{\argmin}{arg\,min}
\DeclareMathOperator*{\argmax}{arg\,max}

\counterwithout{equation}{chapter} % remove the chapter number
% \counterwithin{equation}{chapter}  % add the chapter number

\counterwithout{figure}{section}

\DeclareSIUnit\year{yr}
\DeclareSIUnit\BP{BP}
\DeclareSIUnit\basepairs{bp}

\newcommand*\dx{\mathop{}\!\mathrm{d}}

\newcommand{\Npdfpages}[1]{\pdfximage{#1}\the\pdflastximagepages}

\usetikzlibrary{bayesnet}
\usetikzlibrary{calc}


% Update to your bibliography file
\addbibresource{bibliography.bib}


\author{Christian Michelsen}
\title{Biological Data Science}
\subtitle{Ancient genomics, anesthesiology, epidemiology, and a bit in between}
\person{Supervisor}{Troels C. Petersen}{Niels Bohr Institute}
\person{Cosupervisor}{Thorfinn S. Korneliussen}{Globe Institute}

\shoutouts{Til Blob.}


\begin{document}

\maketitle

\addtocontents{toc}{\protect\addvspace{-1.5cm}}
\tableofcontents

\frontmatter
% \part*{Front}
\pagenumbering{roman}
\include{frontmatter/preface.tex}
\include{frontmatter/abstract.tex}
\include{frontmatter/dansk-abstract.tex}
\include{frontmatter/publications.tex}
\include{frontmatter/acknowledgements.tex}

\mainmatter
% \part*{Main}
\pagenumbering{arabic}
\include{mainmatter/introduction.tex}
\include{backmatter/bibliography.tex}

\include{mainmatter/paper-dna.tex}
\include{mainmatter/paper-hospital.tex}
\include{mainmatter/paper-covid.tex}
\include{mainmatter/paper-diffusion.tex}


\part*{Appendix}
\appendix
\include{mainmatter/appendix.tex}

\backmatter
% \include{backmatter/index.tex}

\end{document}