In the context of complexity, it is well known that each change that is given to nodes or relationships in a network will give emergent properties, and I am looking for a way to model these effects.
I recommend to start with and study one special, highly regular network called cellular automata. There are many possible choices, the first one would be John Conway's 'Game of Life' automaton.
Firstly, there is a lot of software for GoL available online for free. Secondly, there are a lot of publications about them.
I recommend to check my projects (on Complexity) there are links to some software and books. Many of my scientific outputs are dealing with CAs too.
One note remark. When you fgo through the step one, it is highly recommended to study Network Medicine and biology as provided by Albert-Lazslo Barabasi. Citations are in my medical review and poster on complexity.
Thank you. There is one crucial aspect to complex systems that you probably already know but it is important to repeat it again and again.
Entropy.
The concept entropy enables us to measure the operational state of any complex system in existence without having access to its totality.
It is possible to observe just one signal generated by the observed system and from this signal -- using entropy measures -- to assess the operational mode and other properties of the observed CS.
I did propose and used the same approach to predict ventricular/TdP arrhythmias from ECG recording (signal) of the heart (CS).