Describing the water depths in your model area for the hydrodynamic model is without doubt the most important task in the modelling process. A few hours less spent in setting up the model bathymetry might later on mean extra days spent in the calibration process.
Giving exhaustive guidelines for how you should specify the bathymetry in order to avoid any problems later on is, however, nearly impossible. You can avoid many problems in the modelling process by adhering to the directions given below, but the experience you build up through practise is valuable.
An example with a step-by-step description of how to use the Bathymetry Editor for creating a bathymetry data file is included with the installation. Please find this example in your installation folder under Examples\MIKEZero\BatEdit.