In chemical kinetics research, kinetic models containing hundreds of species and tens of thousands of elementary reactions are commonly used to understand and predict the behavior of reactive chemical systems. Reaction Mechanism Generator (RMG) is a software suite developed to automatically generate such models by incorporating and extrapolating from a database of known thermochemical and kinetic parameters.Here, we present the recent version 3 release of RMG and highlight improvements since the previously published description of RMG v1.0. One important change is that RMG v3.0 is now Python 3 compatible, which supports the most up-to-date versions of cheminformatics and machine learning packages that RMG depends on. Additionally, RMG can now generate heterogeneous catalysis models, in addition to the previously available gas-and liquid-phase capabilities. For model analysis, new methods for local and global uncertainty analysis have been implemented to supplement first-order sensitivity analysis. The RMG database of thermochemical and kinetic parameters has been significantly expanded to cover more types of chemistry. The present release also includes parallelization for reaction generation and on-the-fly quantum calculations, and a new molecule isomorphism approach to improve computational performance. Overall, RMG v3.0 includes many changes which improve the accuracy of the generated chemical mechanisms and allow for exploration of a wider range of chemical systems.
The automatic microkinetic mechanism generator for heterogeneous catalysis, RMG-Cat, has been extensively updated. Density functional theory calculations were performed for 69 adsorbates on Pt(111), and the resulting thermodynamic properties were added to RMG-Cat. The thermo database is significantly more accurate; it includes nitrogen-containing adsorbates for the first time as well as better capabilities for predicting the thermochemistry of novel adsorbates. Additionally, RMG-Cat can now simultaneously pursue a mechanism expansion both on the surface and in the gas phase. This heterogeneous/homogeneously coupled capability is tested on the catalytic combustion of methane on platinum. The results confirm that under some conditions the catalyst is capable of inducing thermal ignition in the gas phase.
Automatic mechanism generation is used to determine mechanisms for the CO 2 hydrogenation on Ni(111) in a two-stage process while considering the correlated uncertainty in DFT-based energetic parameters systematically. In a coarse stage, all the possible chemistry is explored with gas-phase products down to the ppb level, while a refined stage discovers the core methanation submechanism. Five thousand unique mechanisms were generated, which contain minor perturbations in all parameters. Global uncertainty assessment, global sensitivity analysis, and degree of rate control analysis are performed to study the effect of this parametric uncertainty on the microkinetic model predictions. Comparison of the model predictions with experimental data on a Ni/SiO 2 catalyst find a feasible set of microkinetic mechanisms within the correlated uncertainty space that are in quantitative agreement with the measured data, without relying on explicit parameter optimization. Global uncertainty and sensitivity analyses provide tools to determine the pathways and key factors that control the methanation activity within the parameter space. Together, these methods reveal that the degree of rate control approach can be misleading if parametric uncertainty is not considered. The procedure of considering uncertainties in the automated mechanism generation is not unique to CO 2 methanation and can be easily extended to other challenging heterogeneously catalyzed reactions.
The Reaction Mechanism Generator (RMG) database for chemical property prediction is presented. The RMG database consists of curated datasets and estimators for accurately predicting the parameters necessary for constructing a wide variety of chemical kinetic mechanisms. These datasets and estimators are mostly published and enable prediction of thermodynamics, kinetics, solvation effects, and transport properties. For thermochemistry prediction, the RMG database contains 45 libraries of thermochemical parameters with a combination of 4564 entries and a group additivity scheme with 9 types of corrections including radical, polycyclic, and surface absorption corrections with 1580 total curated groups and parameters for a graph convolutional neural network trained using transfer learning from a set of >130 000 DFT calculations to 10 000 high-quality values. Correction schemes for solvent−solute effects, important for thermochemistry in the liquid phase, are available. They include tabulated values for 195 pure solvents and 152 common solutes and a group additivity scheme for predicting the properties of arbitrary solutes. For kinetics estimation, the database contains 92 libraries of kinetic parameters containing a combined 21 000 reactions and contains rate rule schemes for 87 reaction classes trained on 8655 curated training reactions. Additional libraries and estimators are available for transport properties. All of this information is easily accessible through the graphical user interface at https://rmg.mit.edu. Bulk or on-the-fly use can be facilitated by interfacing directly with the RMG Python package which can be installed from Anaconda. The RMG database provides kineticists with easy access to estimates of the many parameters they need to model and analyze kinetic systems. This helps to speed up and facilitate kinetic analysis by enabling easy hypothesis testing on pathways, by providing parameters for model construction, and by providing checks on kinetic parameters from other sources.
Kinetic parameters for surface reactions can be predicted using a combination of DFT calculations, scaling relations, and machine learning algorithms; however, construction of microkinetic models still requires a knowledge of all the possible, or at least reasonable, reaction pathways. The recently developed Reaction Mechanism Generator (RMG) for heterogeneous catalysis, now included in RMG version 3.0, is built upon well-established, open-source software that can provide detailed reaction mechanisms from user-supplied initial conditions without making a priori assumptions. RMG is now able to estimate adsorbate thermochemistry and construct detailed microkinetic models on a range of hypothetical metal surfaces using linear scaling relationships. These relationships are a simple, computationally efficient way to estimate adsorption energies by scaling the energy of a calculated surface species on one metal to any other metal. By conducting simulations with sensitivity analyses, users can not only determine the rate limiting step on each surface by plotting a "volcano surface" for the degree of rate control of each reaction as a function of elemental binding energies, but also screen novel catalysts for desirable properties. We investigated the catalytic partial oxidation of methane to demonstrate the utility of this new tool and determined that an inlet gas C/O ratio of 0.8 on a catalyst with carbon and oxygen binding energies of -6.75 eV and -5.0 eV, respectively, yields the highest amount of synthesis gas. Sensitivity analyses show that while the dissociative adsorption of O 2 has the highest degree of rate control, the interactions between individual reactions and reactor conditions are complex, which result in a dynamic rate-limiting step across differing metals. File list (2) download file view on ChemRxiv LSRs in RMG-Cat preprint.pdf (1.72 MiB) download file view on ChemRxiv supplementaryinfo.pdf (374.47 KiB)
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