inGAP-family: Accurate Detection of Meiotic Recombination Loci and Causal Mutations by Filtering Out Artificial Variants due to Genome Complexities. - Qichao Lian; Yamao Chen; Fang Chang; Ying Fu; Ji Qi (Genom. Proteom. Bioinform., 2022)

Tree2GD: a phylogenomic method to detect large-scale gene duplication events. - Duoyuan Chen; Taikui Zhang; Yamao Chen; Hong Ma; Ji Qi (Bioinform., 2022)

STEEL enables high-resolution delineation of spatiotemporal transcriptomic data. - Yamao Chen; Shengyu Zhou; Ming Li; Fangqing Zhao; Ji Qi (Briefings Bioinform., 2023)