Start off by locating a chart that you want to set an alert for. Choose your desired timeframe and right click the main chart area. An option called "Add Alert (price)" should appear. Click it and a new dialog will appear allowing you to set up the alert.
In the Condition field, you will need to select MokuMaster. This changes the layout of the screen somewhat, giving you an additional dropdown box. The dropdown allows you to pick what type of event needs to happen within MokuMaster for the alert to trigger. The other values in this dialog all relate to the timing and delivery of the event and are not MokuMaster specific. They speak for themselves, so won't be clarified further right now.
We do advise to put the Once Per Bar Close option on, since you might receive a lot of alerts when an active candle is ranging between becoming a signal candle or not. MokuMaster acts on the candle close, which is why setting this option is preferred.