Trajectory

Principal-curve and principal-tree trajectory inference and pseudotime.

trajectory.get_curve	Compute a smooth linear trajectory (t) in [0, 1] via principal graph fitted onto the given manifold (adata.obsm[use_rep]); Use optional marker to rotate the (+/-) sign of the trajectory s.t.
trajectory.get_tree	Compute a tree-like trajectory via elastic principal graph fitted onto the given manifold (adata.obsm[use_rep]).
trajectory.compute_pseudotime	Compute pseudotime (t) in [0, 1] along the given principal graph fitted onto the latent space (adata.obsm[use_rep]); Use optional marker to rotate the (+/-) sign of the trajectory at which the root_marker enriches
trajectory.sort_nodes	Compute principal node ordering from root to term
trajectory.prune_tree	Remove unwanted tips by calling scf.tl.cleanup and return the node index mapping.
trajectory.get_cell_projections	Assign each cell to the closest principal graph edges