I've created this template for my master's thesis at the University of Modena and Reggio Emilia (UNIMORE). It already contains most of the packages for mathematical and chemical formulas, tables and figures. If necessary, you can customize it depending on your needs.
% ----- README ------
% THIS TEMPLATE HAS BEEN CREATED FOR A MASTER'S DEGREE THESIS IN ENVIRONMENTAL ENGINEERING (UNIVERSITY OF MODENA AND REGGIO EMILIA, ITALY).
% THIS IS THE MAIN DOCUMENT OF THE THESIS. IT IS A TWO-SIDE DOCUMENT (A4 PAGE) WITH JUSTIFIED TEXT. THE MAIN LANGUAGE IS NOW SET TO ENGLISH.
% SETTINGS (MARGINS ETC.) CAN BE CHANGED BY MODIFYING "packages.tex" and "main.tex" files.
% MANY PACKAGES FOR TABLES, FIGURES, MATH AND CHEMICAL FORMULAS HAVE BEEN ALREADY LOADED.
% -------------------
% SET DOCUMENT CLASS, PAGE SETTINGS, FONT...
\documentclass[12pt,a4paper,twoside,openright,justified]{book}
% SET FONT TYPE
\usepackage[T1]{fontenc}
\usepackage{lmodern}
% OTHER FONTS....
%\usepackage{tgpagella}
%\usepackage{mathpazo}
% LOAD PACKAGES...
\input{packages.tex}
% SET MAXIMUM DEPTH OF TOC AND SECTIONS
\setcounter{secnumdepth}{4}
\setcounter{tocdepth}{4}
% START THE DOCUMENT
\begin{document}
% INSERT FRONTPAGE
\pagestyle{empty}
\input{frontpage.tex}
% START QUOTE PAGE
\cleardoublepage
{
\vspace*{0.2\textheight}
\large
\noindent\hfill\enquote{\itshape
Reality must take precedence over public relations,\\
\vspace{-1cm}
\null\hfill{for nature cannot be fooled.}}
\bigbreak
}
\large
\hfill Richard P. Feynman
\normalsize
% END QUOTE PAGE
% SET TEXT STYLE TO JUSTIFIED
\justifying
% SET SPACE BETWEEN TEXT AND FOOTNOTES
\setlength{\skip\footins}{8mm}
% SET PARAGRAPH INDENT
\setlength{\parindent}{0pt}
\setlength{\parskip}{2mm}
% -------------------
% INSERT ABSTRACT (main language, here Italian "sommario")
\input{abstract-ita}
% ABSTRACT ENG
\input{abstract-eng}
% GRAPHICAL ABSTRACT
\input{graphical-abstract}
% SELECT MAIN LANGUAGE (eng or ita), AFTER ENGLISH ABSTRACT AND GRAPHICAL ABSTRACT
\selectlanguage{english}
%\selectlanguage{italian}
% START FRONTMATTER (Table Of Contents, List Of Tables, List Of Figures) - ROMAN NUMERALS
\frontmatter
\begin{spacing}{1.3}
\pagestyle{toclof}
\tableofcontents % INSERT TABLE OF CONTENTS
\clearpage
\listoffigures % INSERT LIST OF FIGURES
\clearpage
\listoftables % INSERT LIST OF TABLES
\clearpage
\end{spacing}
% --------------------------
% START THESIS (Arabic numerals)
\mainmatter
% INTRODUCTION
\input{BODY/0_INTRODUCTION/introduction}
% CHAPTER 1
\input{BODY/1_CHAP/chap_1}
% CHAPTER X
%\input{insert the chapter name here}
% ....... BODY OF THE THESIS
% CONCLUSIONS
\input{BODY/CONCLUSIONS/conclusions.tex}
% APPENDIX
\input{BODY/APPENDIX A/appendix-A}
% BIBLIOGRAPHY
\setstretch{1.2} % DECREASE LINE SPACING IN BIBLIOGRAPHY
\normalsize\printbibliography[title={Bibliography}]
\addcontentsline{toc}{chapter}{Bibliography} \markboth{Bibliography}{Bibliography}
% ACKNOWLEDGMENT
\input{BODY/ACKNOWLEDGMENTS/acknowledgment.tex}
% END DOCUMENT
\end{document}