Graphics like Towns and Gnomoria

I am interested in making a java game with graphics like Towns or Gnomoria. I know how to make it so that I had top down tile based graphics like Dwarf Fortress but I am unsure how to make 2.5d graphics like Towns. I have some slight ideas on how to make a top down isometric view but I am unsure how to draw multi z-level graphics in an isometric view. Any advice or good tutorials for me to look at? I could use any help you are willing to give.

So the projection you’re looking for is isometric.

Some isometric tutorials:

Ultimately once you understand the basics of isometrics the quality of your art simply comes from your artistic ability as a pixel artist.

Here are some pixel art tutorials I found useful:

How would you do multiple z layer graphics though? How would you be able to tell what to draw and what to hide?

http://mazebert.com/2013/04/18/isometric-depth-sorting/

Thanks, that is just what I was looking for.