Protocol for the preparation, execution, and automated analysis via IntelliR of IntelliCage-based mouse experiments

The rapidly evolving field of rodent behavior research led to the development of the IntelliCage, enabling observer-independent experiments with mice. Here, we present a detailed protocol for IntelliCage-based automated cognitive profiling of mice that navigates users through all experimental steps. In addition to instructions on how to prepare, execute, and analyze the experiment, we provide empirically informed recommendations and notes that may help new users plan robust and reproducible IntelliCage-based experiments. For complete details on the use and execution of this protocol, please refer to Gastaldi et al.¹.