■ Developed Software

• TENET+: A tool for reconstructing gene regulatory network based on pseudo-time ordered scRNAseq and scATACseq data (https://github.com/hg0426/TENETPLUS)
• CellCraft: A web-based analysis platform for multimodal analysis of scRNAseq, scATACseq, and spatial transcriptomics data.
• NicheSVM-GUI: An intuitive and user-friendly graphical interface for analyzing single-cell and spatial transcriptomics data (https://github.com/jahanzebsaqib/NicheSVM-GUI)
• NicheSVM: A tool for analyzing PICs (Physically Interacting Cells) to detect niche-specific expression (https://github.com/neocaleb/NicheSVM)
• VeTra: A tool for inferring pseudo-time information from RNA velocity (https://github.com/wgzgithub/Vetra)
• TENET: A tool for reconstructing gene regulatory network based on pseudo-time ordered single cell transcriptome data (https://github.com/neocaleb/TENET)
• CellBIC: Biomodality-based top-down clustering of single-cell transcriptome data (https://github.com/neocaleb/CellBIC)