arXiv Machine Learning
Aug 28

Packora: Systematic Design for Generative Molecular Crystal Structure Prediction

Packora is a flow-based generative model designed for molecular crystal structure prediction (CSP). It jointly predicts atomic coordinates and lattice parameters from molecular graphs, supporting multi-component and organometallic crystals and allowing conditioning on conformers, stereochemistry, and space-group data. In evaluations inspired by the CCDC CSP blind test, Packora outperforms baselines on generation and ranking benchmarks, achieving superior matched-budget coverage, higher experimental-form recovery, lower ranks, and faster convergence.

By Nayoung Kim, Kiyoung Seong, Sungsoo Ahn
arXiv Machine Learning
Sep 23

Deep Generative Crystal Structure Prediction: A Benchmark Study and a Controlled Test of Prototype Dependence

The study benchmarks 12 deep generative crystal structure prediction models against the template-based TCSP 2.0 on 180 test structures, finding that template retrieval achieves the highest top‑1 success (68.3%). Most generative predictions overlap with template substitutions, and removing entire stoichiometric prototype families from training reduces accuracy by 50‑78%, indicating strong prototype dependence. Only a small subset of predictions remain after such removal, suggesting limited genuine de‑novo capability.

By Lai Wei, Rongzhi Dong, Ying Feng, Madeline Miklos, Jianjun Hu
arXiv Machine Learning
Jun 9

Enhancing Spatial Reasoning in Large Language Models for Metal-Organic Frameworks Structure Prediction

arXiv:2601. 09285v2 Announce Type: replace Abstract: Metal-organic frameworks (MOFs) are porous crystalline materials with broad applications such as carbon capture and drug delivery, yet accurately predicting their 3D structures remains a significant challenge.

By Mianzhi Pan, JianFei Li, Peishuo Liu, Botian Wang, Yawen Ouyang, Yiming Rong, Hao Zhou, Jianbing Zhang
arXiv Machine Learning
Jul 7

FastCSP: Accelerated Molecular Crystal Structure Prediction with Universal Model for Atoms

arXiv:2508. 02641v2 Announce Type: replace-cross Abstract: Molecular crystal structure prediction (CSP) is essential for applications in pharmaceuticals and organic electronics.

By Vahe Gharakhanyan, Yi Yang, Luis Barroso-Luque, Daniel S. Levine, Sushree Jagriti Sahoo, Brandon M. Wood, Kyle Michel, Muhammed Shuaibi, Gregory J. O. Beran, Viachaslau Bernat, Misko Dzamba, Xiang Fu, Meng Gao, Xingyu Liu, Benjamin K. Miller, Keian Noori, Lafe J. Purvis, Tingling Rao, Ammar Rizvi, Matt Uyttendaele, Andrew J. Ouderkirk, Chiara Daraio, C. Lawrence Zitnick, Arman Boromand, Noa Marom, Zachary W. Ulissi, Anuroop Sriram
arXiv Machine Learning
1d ago

EP-Flow: Disordered Crystal Structure Prediction without Site-Level Annotations

EP-Flow introduces a new framework for predicting disordered crystal structures without requiring site-level disorder annotations. It uses an Occupancy Distribution Matrix (ODM) to represent continuous site-by-species occupancies and enforces constraints through a transportation polytope. The method jointly generates occupancies, fractional coordinates, and lattice parameters, achieving state‑of‑the‑art performance on formula‑conditioned disordered CSP benchmarks and recovering chemically meaningful local disorder patterns.

By Qiuliang Liu, Liming Wu, Qi Li, Zhonglong Peng, Chang Chen, Xiaolong Chen, Wenbing Huang, Shifeng Jin