Background: After serious epidemics of chikungunya (CHIKV) and Zika (ZIKV) in the Americas, dengue (DENV) has reemerged in most countries. We estimated the incidence rates and evolution of DENV cases in Ecuador from 1994 to 2018 using geographical information systems (GIS). Methods & Materials: Using epidemiological weeks (EW) surveillance data on the DENV in Ecuador, we estimated incidence rates (cases/100,000 population), and developed maps at national, departmental, and province levels, using Kosmo 3.0 GIS-software. Results: From 1 January 2016 to 31 December 2018, a total of 251,799 cases of DENV were reported, ranging from 40,501 [2015] to 855 [2016], for incidence rates varying between 5.18 and 249.37 cases/100,000 pop. Guayas, Manabí and El Oro provinces, concentrated 66.6% of the cases, however, the highest rates were reached at Sucumbios (138.14 cases/100,000 pop, 2001), Cañar (119.86 cases/100,000 pop, 1996) and Galapagos Islands (117.98 cases/100,000 pop, 2002). We developed 25 epidemiological GIS-based maps. Conclusion: The pattern and evolution of DENV epidemics in Ecuador have been similar to other countries in the region of Latin America. The 2015 DENV epidemic was concurrent with the chikungunya epidemic, previously reported by us, in the same areas, Guayas, Manabí, and El Oro, among others. The most affected areas are coastal and touristic, such as the Galapagos Islands, also affected and highly visited by domestic and international travelers. Studies using geographical information systems linked with clinical disease characteristics are necessary to attain accurate epidemiological data for public health systems. Such information is also useful for assessment of risk for travelers who visit specific areas in a destination country.