I figured out myself how to solve this problem. Here's what I did wrong for people with the same problem:
Within a function I used the line
[m,n] = [x,y]
to save the coordinates of an object from a matrix. This was called within a loop using x and y to browse through the matrix.
Apparently this caused the stacksize exceeded error and here's how I wrote it afterwards:
m = x
n = y
I have no idea why this line caused this error, but this is how I've solved it.