Taxis:
There exist many taxi companies with official vehicles in good condition. Also there are the "Boteros", which are private cars. The rate is slightly lower, but the service and the facillities are inferior.  

Additionally there are the "cocotaxis", named this way because of its shape. Have capacity for three people and can be an unusual and entertained way to be transported.

Car Rental
There are several companies to rent a car. Though, in tourist season, it is complicated to rent one because there is great demand, fro this it is suitable to do the reservation a time before the date of the arrive to the country.

Trains and buses
It is not convenient to use the train service, because it is very irregular, the same as the common buses. so it is better to take those that the Travel companies offer, which are really good.