We developed a process-based model for peatland micro-topography and hydrology, the Hummock-Hollow (HH) model, which explicitly represents small-scale surface elevation changes. By coupling the HH model with a model for soil methane processes, we are able to model the effects of micro-topography on hydrology and methane emissions in a typical boreal peatland. We also identify potential biases that models without a micro-topographic representation can introduce in large-scale models.