This visualization modality extends to the thermodynamic and kinetic aspects of the network. The nodes' background colors signify the thermodynamic energies of compounds, while the fill colors of the directional arrows (depicting reactions) represent the energies of the transition states. Notably, bidirectional reactions are represented by two distinct arrowed edges, effectively illustrating the forward and backward reactions as separate entities. This color encoding is achieved through a normalization process, wherein the minimum and maximum energy values from the superset of compounds and reactions are used to create a function that projects these energies onto the [0, 1] interval. This normalized data is then visually represented using colors from a predefined colorscheme. rNets is capable of visually encoding reaction kinetics when transition state energies are provided in the "reactions" file. These energies, listed under the "optional" energy column, enable rNets to dynamically adjust the width of the arrows. This adjustment is proportional to the pseudo-kinetic constants derived from the specified energies, following the methodology outlined in Note S1. This feature allows for a more nuanced and informative representation of the reaction network, highlighting the kinetic relationships between different components.