It sounds like your intensity graph does not have square
"pixels". Be default, the intensity graph has a square aspect
ratio. If your array is not a square array, it will appear
distorted on the graph. If this is the problem, resize the graph
so it has the same aspect ratio as your data. You can do this
manually by dragging the corners of the graph, or use the graph
properties to change the display size exactly. If you do it
programmatically, it can be done dynamically based on your data size.