| averagePseudotime | Compute the average pseudotime |
| createClusterMST | Minimum spanning trees on cluster centroids |
| defineMSTPaths | Define paths through the MST |
| guessMSTRoots | Guess the roots of a MST |
| PseudotimeOrdering | The PseudotimeOrdering class |
| rowmean | Compute column means based on a grouping variable |
| splitByBranches | Split a graph into branch-free paths |
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