|As the basis of the environmental ecological river management, this research developed a method of habitat classification using imagery information to understand a distribution characteristics of fish living in a natural river, First, topographic survey and investigation of discharge and water temperature were carried out to analyze hydraulic characteristics of fish habitat, and the unmanned aerial photography was applied to acquire river imagery at the observation time. Riffle, pool, and glide regions were selected as river habitat to analyze fish distribution characteristics. Analysis showed that the standard deviation of RGB on the riffle is higher than pool and glide because of fast stream flow. From the classification accuracy estimation on riffle region according to resolution and kernel size using the characteristics of standard deviation of RGB, the highest classification accuracy was 77.17% for resolution with 30㎝and kernel size with 11. As the result of water temperature observation on pool and glide using infrared camera, they were 19.6~21.3℃ and 15.5~16.5℃ respectively with the differences of 4~5℃. Therefore it is possible to classify pool and glide region using the infrared photography information. The habitat classification to figure out fish distribution can be carried out more efficiently, if unmanned aerial photography system with RGB and infrared band is applied.