Tutorials

Install the Jupyter notebook to run the tutorial notebooks:

$ conda install jupyter

Contents

• Visualize the global cell state manifold
  • Visualize cell type distributions
  • Visualize gene expression patterns
• Zero-shot integration of scRNA-seq datasets
• Project single-cell states onto the global cell state manifold
  • Project a dataset of natural cell states
  • Project a dataset of transdifferentiation
• Conditioned generation of cell states
  • Generation of cell types
  • Generation of continuous cell state trajectories
• Predict causal genes for cell state transitions
• Universal Decomposition of Perturbation Effects
  • Load and preprocess the perturb-seq dataset
  • Project perturbation effects onto the principal axes of cell state transitions
  • Grouping of perturbations into universal clusters
• Few-shot Prediction of Perturbation Effects
  • Learn a universal embedding of perturbations
  • Few shot prediction