Compute Branch Probabilities Using Markov Chain — differentiationProbabilities • dandelionR

This function calculates branch probabilities for differentiation trajectories based on a Markov chain constructed from waypoint data and pseudotime ordering.

Usage

differentiationProbabilities(
  wp_data,
  terminal_states = NULL,
  knn = 30L,
  pseudotime,
  waypoints
)

Arguments

wp_data: A multi-scale data matrix or data frame representing the waypoints.
terminal_states: Integer vector. Indices of the terminal states. Default is NULL.
knn: Integer. Number of nearest neighbors for graph construction. Default is 30L.
pseudotime: Numeric vector. Pseudotime ordering of cells.
waypoints: Integer vector. Indices of selected waypoints used to construct the Markov chain.

Value

A numeric matrix or data frame containing branch probabilities for each waypoint.