CellRank for directed single-cell fate mapping

Computational trajectory inference enables the reconstruction of cell state dynamics from single-cell RNA sequencing experiments. However, trajectory inference requires that the direction of a biological process is known, largely limiting its application to differentiating systems in normal development. Here, we present CellRank ( https://cellrank.org ) for single-cell fate mapping in diverse scenarios, including regeneration, reprogramming and disease, for which direction is unknown. Our approach combines the robustness of trajectory inference with directional information from RNA velocity, taking into account the gradual and stochastic nature of cellular fate decisions, as well as uncertainty in velocity…

• JH
  Joachim Herz Stiftung
• DF
  Deutsche Forschungsgemeinschaft

  Award: GSC 1006
• BF
  Bundesministerium für Bildung und Forschung

  Awards: 01IS18036B, 01IS18053A
• HA
  Helmholtz Association

  Award: ZT-I-0007