Replace your original speaker wires with flat speaker wires. These will lay flat against the ground and allow you to paint over the wires. If possible, save yourself a step and purchase speaker wires that match the color of your baseboards.
Paint the speaker wires so that they blend in with the baseboards. Apply the paint and then allow the pain to dry for several hours.
Run the wire along the baseboards. If you have carpet, see if you can tuck the wires between the carpet and the baseboards, some baseboards are elevated slightly, which makes it possible to tuck the wire under the baseboard. If you have wood floors, secure the wire along the side of the baseboard.