Coils have two sets of copper windings. Each set of windings has a specific range of resistance that is acceptable. The primary windings are supposed to be 3 Ohm as has been pointed out. On most 3 Ohm coils, the range of resistance will be in the 3.2 to 4.2 Ohm range. To check primary resistance, use a multimeter in Ohms scale in the lowest scale and with the bike OFF, put your probes on the two lugs where the power and ignition wire connect to the coil (the two small wires). You will read the primary resistance. If you are using the original coils, it makes sense to make this check as values outside the range noted indicate a potential short (and problem). The secondary windings also have a resistance range, usually between 12-20K Ohms. To measure your coils, put your meter in Ohms scale in a range that can read the higher value. The trick here is what type of coils you have. If you have coils where the plug wires can be removed, remove the plug wires and measure at the contact points where the plug wires make contact with the coils. If the wires are epoxied in place, measure on the contacts where the wires contact the plugs. Measuring at this location can often be tough and sometimes it is hard to get a good reading.
The original question is how to wire the Dyna S up... you remove your stock ignition plate and pickup coils. You remove the stock IC Igniter. Essentially the black wire from the Dyna S pickup will go up and connect with your 1 & 4 coil and the green wire will connect to your 2 & 3 coil. The Dyna S may use little bands colored black and green on the actual wires to designate which wire is which. There is a center rotor on the end of your crank supplied by Dyna that has a magnet embedded (it is painted over and shows up as a small depression about the size of a pencil eraser) that is painted over. This magnet needs to be oriented at about the 9 oclock position, as I recall, with the 1&4 pistons set at TDC.
Won't try and give complete instructions as Dyna has already done this and these instructions are available on their website -
www.dynaonline.com