2021/11/29 by Rishikesh Magar, Magar, Rishikesh, Yuyang Wang +11 · 2 citations
Chemistry · Computer Science · Materials Science · #Chemical Physics (physics.chem-ph) #Computational Drug Discovery Methods #FOS: Computer and information sciences #FOS: Physical sciences #Machine Learning (cs.LG) #Machine Learning in Materials Science #Various Chemistry Research Topics
paper · pdf · doi:10.48550/arxiv.2111.15112
openalex publication_date 2021/11/30 · openalex created_date 2022/05/05 · openalex updated_date 2026/07/28
Machine learning (ML) has demonstrated the promise for accurate and efficient property prediction of molecules and crystalline materials. To develop highly accurate ML models for chemical structure property prediction, datasets with sufficient samples are required. However, obtaining clean and sufficient data of chemical properties can be expensive and time-consuming, which greatly limits the performance of ML models. Inspired by the success of data augmentations in computer vision and natural language processing, we developed AugLiChem: the data augmentation library for chemical structures. Augmentation methods for both crystalline systems and molecules are introduced, which can be utilized for fingerprint-based ML models and Graph Neural Networks(GNNs). We show that using our augmentation strategies significantly improves the performance of ML models, especially when using GNNs. In addition, the augmentations that we developed can be used as a direct plug-in module during training and have demonstrated the effectiveness when implemented with different GNN models through the AugliChem library. The Python-based package for our implementation of Auglichem: Data augmentation library for chemical structures, is publicly available at: https://github.com/BaratiLab/AugLiChem.