CCLasso: correlation inference for compositional data through Lasso. - Huaying Fang; Chengcheng Huang; Hongyu Zhao 003; Minghua Deng (Bioinform., 2015)

VCNet: vector-based gene co-expression network construction and its application to RNA-seq data. - Zengmiao Wang; Huaying Fang; Nelson L. S. Tang; Minghua Deng (Bioinform., 2017)

gCoda: Conditional Dependence Network Inference for Compositional Data. - Huaying Fang; Chengcheng Huang; Hongyu Zhao 003; Minghua Deng (J. Comput. Biol., 2017)

Network Clustering Analysis Using Mixture Exponential-Family Random Graph Models and Its Application in Genetic Interaction Data. - Yishu Wang 003; Huaying Fang; Dejie Yang; Hongyu Zhao 003; Minghua Deng (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

Estimating graphical models for count data with applications to single-cell gene network. - Feiyi Xiao; Junjie Tang; Huaying Fang; Ruibin Xi (NeurIPS, 2022)

gmcoda: Graphical model for multiple compositional vectors in microbiome studies. - Huaying Fang (Bioinform., 2023)