Tutorials

A full example of a minimal workflow is given in the following notebook:

human bonemarrow example notebook

• Data loading and preparation
  • Example data (anndata)
  • Anndata object preparation
  • Mudata object preparation
  • Saving the prepared data
• Model initialization and training
  • Initialization
  • Training
  • Save the model
• Data integration
  • Loading a model
  • Integrating new data
  • Integrating a single modality / Predicting missing modalities
  • Integrating novel covariates
• Plotting
• Gene2Peak: in silico perturbations