Once you start playing with it, it comes clear very fast. On some of the more complicated stuff like dosing, I used a lamp on the outlet I was programming to check what it was doing.
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What Fishmommy said! Once you start playing with it, it becomes second nature. There is plenty of info in the neptune section here as well as at the Neptune Forum at Neptunesystems.com
Also, if you checkout reeftronics site and look at the Apex users there, you can see their programming and get lots of ideas.
Here is a link to my programming there. Maybe it will help you with some ideas.
I've got 7 EB8's on my system and over 40 outlets in use plus countless virtual outlets, switches, solenoids, Tunze wave making pumps etc, salinity monitoring, water on the floor monitoring, Apex controlled ATO etc. My Apex is running so much crap that I still become amazed at myself everytime I look at all of my programming. It's absolutely wonderous what you can do and control easily with the Apex!
Between the Neptune section here and the Neptune forum at Neptunes site along with their extensive manual, you will find a plethora of useful programming info and examples to control and or automate virtually anything you could dream up on a fish tank. Also, between the two sites, you have a wealth of users who can help you come up with programming and or troubleshooting if you need it.