Shopify website color scheme refers to the combination of colors used in the design of a Shopify store. It includes choosing a color palette that is consistent with the brand's identity and appealing to the target audience. Factors to consider include color harmony, readability, and accessibility. Shopify provides tools for customizing the color scheme, and it is important to ensure that the colors chosen are not only visually appealing but also functionally effective in enhancing the user experience.