All Jupyter notebooks and Python scripts for generating figures, experiments, and analyses in "Dynamic visualization of high-dimensional data" by Sun et al., 2022.
- Figure1_visualizations.ipynb contains code for generating Figure 1 panels and associated panels in the Extended Data
- Figure2_scores_theory.ipynb contains code for generating Figure 2 panels and associated panels in the Extended Data
- Figure3_scores_applications.ipynb contains code for generating Figure 3 panels and associated panels in the Extended Data
- Figure4_rna_velocity.ipynb contains code for generating Figure 4 panels and associated panels in the Extended Data
- Supplement.ipynb contains code for generating additional Extended Data figure panels
- process_single_cell_data.ipynb contains code for preprocessing of some of the single-cell datasets used in the experiments
- scg_scripts/ contains Python scripts for doing some of the heavier computations/simulations to get results for visualization in the notebooks above.
- Supplementary_Videos.zip contains HTML and GIF files corresponding to dynamic visualizations in Figure 1 of the manuscript.
The Python package for the associated DynamicViz software can be found at: https://github.com/sunericd/dynamicviz