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The Ministry of National Education of Turkey equipped all schools with interactive boards (IBs) within the scope of the FATİH project. The need for appropriate materials has arisen for the effective use of IBs in educational activities. Three‐dimensional (3D) technologies are also among these materials. It has been determined in the study that IBs have the necessary hardware to run stereoscopic 3D (S3D) training materials, but the panel has not got an S3D imaging feature. Therefore, only the anaglyph S3D imaging method can be applied to IBs. Thus, an anaglyph S3D training material was prepared for the interaction of the skeletal system and interactive 3D material design for IBs with its effects in education was investigated. Besides, S3D imaging methods with features of IBs were examined. A Likert‐type scale was developed to measure the usability of the training material on IBs and the material was evaluated by 20 experts. The data were analyzed by the SPSS statistical program and the results were interpreted. According to the results, educational material seems to be positive in terms of image characteristics, content, navigation, and ease of use, font sizes were moderate for readability, the feedback process and the help menu were moderately effective.