Tutorials

This section provides more detailed examples applying MILK to actual datasets and some of the downstream analyses that can be facilitated.

• MILK tutorial: Network visualization of MILK trees PBMC (3k dataset)
  • Importing libraries
  • Loading the dataset
  • MILK input
  • MILK execution
  • Visualization of the single-cell MILK tree embedding
• MILK tutorial: Quantifying dynamic cellular information with MILK trees (Paul15 dataset)
  • Overview
  • Importing libraries
  • Loading the dataset
  • Standard pre-processing
  • MILK input
  • Running MILK
  • Processing the MILK output
  • Visualizing the MILK tree in R (ggraph package)
  • Downstream analyses utilizing the MILK tree output

Coming soon!