assign_branches | Detect branches in the trajectory and assign cells to branches |
cell_order | Sort cells according to their progress through a process |
compute_geodesic_entropy | Compute the geodesic entropy profile of a trajectory |
conn_knn_graph | Construct a k-nearest neighbor graph that is fully connected |
detect_cell_types | Identify clusters corresponding to putative cell types |
find_extreme_cells | Identify candidate start cells for the trajectory |
graph_gene | Plot trajectory colored by expression level of a gene |
graph_process_distance | Plot trajectory colored by process distance |
process_distance | Determine the position of each cell within the trajectory |
select_genes | Select genes to use in building a cell trajectory |
select_k | Select the number of nearest neighbors for LLE to use |
traj | This is a dataset containing a synthetic branching trajectory. |
width_k | Helper function for k selection |