\chapter{Three}
\section{A section}
\lipsum \cite{Chomsky1986,Chomsky1995}
\subsection{A subsection}
\lipsum[2]

\bibliographystyle{apalike}
\bibliography{MSU-thesis-testfile}

\begin{appendices}
  \chapter{Tables and Figures}
  \lipsum[1]
  \chapter{Model Equations}
\lipsum[2]
\end{appendices}
% Add before bibliography call