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Bonds and local atomic environments are crucial descriptors of material properties. They have been used to create design rules and heuristics and as features in machine learning of materials properties. Implementations and algorithms (e.g., ChemEnv and LobsterEnv) for identifying local atomic environments based on geometrical characteristics and quantum-chemical bonding analysis are nowadays available. Fully automatic workflows and analysis tools have been developed to use quantum-chemical bonding analysis on a large scale. The lecture will demonstrate how our tools, that assess local atomic environments and perform automatic bonding analysis, help to develop new machine learning models and a new intuitive understanding of materials.[5,6] Furthermore, the general trend toward automation in density functional-based materials science and some of our recent contributions will be discussed.
The LOBSTER (Deringer et al., 2011;Maintz et al., 2013 ,2016 ;Nelson et al., 2020 ) software aids in extracting quantum-chemical bonding information from materials by projecting the plane-wave based wave functions from density functional theory (DFT) onto an atomic orbital basis. LobsterEnv, a module implemented in pymatgen (Ong et al., 2013) by some of the authors of this package, facilitates the use of quantum-chemical bonding information obtained from LOBSTER calculations to identify neighbors and coordination environments. LobsterPy is a Python package that offers a set of convenient tools to further analyze and summarize the LobsterEnv outputs in the form of JSONs that are easy to interpret and process. These tools enable the estimation of (anti) bonding contributions, generation of textual descriptions, and visualization of LOBSTER computation results. Since its first release, both LobsterPy and LobsterEnv capabilities have been extended significantly. Unlike earlier versions, which could only automatically analyze Crystal Orbital Hamilton Populations (COHPs) (Dronskowski & Blöchl, 1993), both can now also analyze Crystal Orbital Overlap Populations (COOP) (Hughbanks & Hoffmann, 1983) and Crystal Orbital Bond Index (COBI) (Müller et al., 2021). Extracting the information about the most important orbitals contributing to the bonds is optional, and users can enable it as needed. Additionally, bonding-based features for machinelearning (ML) studies can be engineered via the sub-packages “featurize” and “structuregraphs”. Alongside its Python interface, it also provides an easy-to-use command line interface (CLI) that runs automatic analysis of the computations and generates a summary of results and publication-ready figures. LobsterPy has been used to produce the results in Ngo et al. (2023), Chen et al. (2024), Naik et al. (2023), and it is also part of Atomate2 (2023) bonding analysis workflow for generating bonding analysis data in a format compatible with the Materials Project (Jain et al., 2013) API.
Bonds and local atomic environments are crucial descriptors of material properties. They have been used to create design rules and heuristics and as features in machine learning of materials properties. Implementations and algorithms (e.g., ChemEnv and LobsterEnv) for identifying local atomic environments based on geometrical characteristics and quantum-chemical bonding analysis are nowadays available. Fully automatic workflows and analysis tools have been developed to use quantum-chemical bonding analysis on a large scale. The lecture will demonstrate how our tools, that assess local atomic environments and perform automatic bonding analysis, help to develop new machine learning models and a new intuitive understanding of materials. Furthermore, the general trend toward automation in density functional-based materials science and some of our recent contributions will be discussed.
Bonds and local atomic environments are crucial descriptors of material properties. They have been used to create design rules and heuristics for materials. More and more frequently, they are used as features in machine learning. Implementations and algorithms (e.g., ChemEnv and LobsterEnv) for identifying these local atomic environments based on geometrical characteristics and quantum-chemical bonding analysis are nowadays available. Fully automatic workflows and analysis tools have been developed to use quantum-chemical bonding analysis on a large scale and for machine-learning approaches. The latter relates to a general trend toward automation in density functional-based materials science. The lecture will demonstrate how our tools, that assess local atomic environments, helped to test and develop heuristics and design rules and an intuitive understanding of materials.
An in-depth insight into the chemistry and nature of the individual chemical bonds is essential for understanding materials. Bonding analysis is thus expected to provide important features for large-scale data analysis and machine learning of material properties. Such chemical bonding information can be computed using the LOBSTER software package, which post-processes modern density functional theory data by projecting the plane wave-based wave functions onto an atomic orbital basis. With the help of a fully automatic workflow, the VASP and LOBSTER software packages are used to generate the data. We then perform bonding analyses on 1520 compounds (insulators and semiconductors) and provide the results as a database. The projected densities of states and bonding indicators are benchmarked on standard density-functional theory computations and available heuristics, respectively. Lastly, we illustrate the predictive power of bonding descriptors by constructing a machine learning model for phononic properties, which shows an increase in prediction accuracies by 27% (mean absolute errors) compared to a benchmark model differing only by not relying on any quantum-chemical bonding features.
Talk about my recent research on data-driven chemical understanding with geometrical and quantum-chemical bonding analysis.
Chemical bonding and coordination environments are crucial descriptors of material properties. They have previously been applied to creating chemical design guidelines and chemical heuristics. They are currently being used as features in machine learning more and more frequently. I will discuss implementations and algorithms (ChemEnv and LobsterEnv) for identifying these coordination environments based on geometrical characteristics and chemical bond quantum chemical analysis. I'll demonstrate how these techniques helped in testing chemical heuristics like the Pauling rule and thereby improved our understanding of chemistry. I'll also show how these tools can be used to create new design guidelines and a new understanding of chemistry. To use quantum-chemical bonding analysis on a large-scale and for machine-learning approaches, fully automatic workflows and analysis tools have been developed. After presenting the capabilities of these tools, I will also point out how these developments relate to the general trend towards automation in the field of density functional based materials science.
We created a workflow that fully automates bonding analysis using Crystal Orbital Hamilton Populations, which are bond-weighted densities of states. This enables understanding of crystalline material properties based on chemical bonding information. To facilitate data analysis and machine-learning research, our tools include automatic plots, automated text output, and output in machine-readable format.