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trajectory-inference

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Infers developmental trajectories, pseudotime, RNA velocity, and directed fate probabilities from single-cell data using PAGA, Slingshot, Monocle3, DPT, Palantir, scVelo, and CellRank 2. Use when ordering cells along a differentiation continuum, choosing a trajectory method by topology, rooting pseudotime, estimating RNA velocity direction, computing fate probabilities near a bifurcation, or judging whether an inferred trajectory is real.

When to use

• ordering cells along a differentiation continuum
• choosing a trajectory method by topology
• rooting pseudotime
• estimating RNA velocity direction
• computing fate probabilities near a bifurcation
• judging whether an inferred trajectory is real

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