While a choice of weighting is necessary to guide HiMap designs, we leave the choice of similarity metric to the user. Depending on what type of free energy calculations are being done and how exactly they are done, different choices of similarity metric may be needed. The choice of weights are a separate question from how perturbation networks are planned. This aspect of planning is our focus here, whereas we treat edge weights and similarity metrics as a user choice. Accordingly, we suggest that users individually verify what rules or similarity metrics suit their application.