split() and multi dimensional array

I've found different examples on line, but none that use the split method with a multidimensional array. I would like a user to input coordinates (x,y) for city locations and store them into a 2-D array. For the user to input the x,y-coordinates on one line I need to use split(',') and then parse the string array to a double which will then be used to calculate the distances from one another.

My issue is how to store the String vales into the 2-D array. I do not want to store the x-value at even (cityArray[0]) and y-value at odd (cityArray[1]) 1-D locations.