This Github repository holds data, Notebooks and results of running SDePER on both Simulated and Real datasets, and Notebooks for figure panels in manuscript, as well as the codes for running other cell type deconvolution methods.
For source code, please refer Github repository SDePER.
Homepage: https://az7jh2.github.io/SDePER/.
Full Documentation for SDePER is available on Read the Docs.
- Simulation: including STARmap-based simulation study, study with downsampling Oligo cells in reference, and simulation based on STARmap data but only including a subset of cell types.
- Simulation_seq_based: including sequencing-based simulation study, and high density sequencing-based simulation study.
- RealData: including analysis of 4 real datasets.
- Ablation: Ablation test of SDePER on 4 simulated datasets.
- Figures: Notebooks for figures in simulation and real data analysis in manuscript.
- Run_other_methods: codes for running other cell type deconvolution methods.