Like others have mentioned, it's rather difficult to get into, but it's quite streamlined for an RTS made during a 2-day game jam. Very well done!
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Well the way I suggest to do it would be to start with a controlled, pre-created game scenario where the player's only option is obvious, and that way the player will figure out the mechanic on their own, for example, putting the player in a scenario where all they can do is gain control over an ant, and not worry the player with other more advanced mechanics and such. Once the player successfully comprehends this mechanic slowly escalate the game to introduce other mechanics, perhaps with a simple guide to each mechanic somewhere on the screen. I know that's much easier to do in a level-based game like mine, but perhaps there's some way to do something similar in yours :) good luck!