The suitability of benthic diatoms in the biological monitoring program of the water quality of Lake Velence was tested. Diatom indices were calculated with the aid of the software Omnidia based on reed periphyton samples collected between 1988 and 1990, and 1999 to 2004. We have pointed out which indices are appropriate for indicating the water quality changes of Lake Velence. The correlation between the indices IBD, IPS, IDG, and the total nitrogen, total phosphorus content of the water and chlorophyll-a content of the periphyton was calculated. Significant negative correlation was found between the indices and the total phosphorus content of the water. Moreover, we concluded that the chlorophyll-a content of the periphyton related to surface area can also provide information about the water quality. Based on these results the index IBD seems to be the most suitable for the water quality analysis of Lake Velence. Recommendations are provided here concerning the ecological status classification of Lake Velence based on epiphytic diatoms; unaccounted questions and future assignments are also outlined in connection with this.