How to cite us#

If you find CellRank useful for your research, please consider citing [Lange et al., 2022] as:

    title = {CellRank for directed single-cell fate mapping},
    author = {Lange, Marius and Bergen, Volker and Klein, Michal and Setty, Manu and
              Reuter, Bernhard and Bakhti, Mostafa and Lickert, Heiko and
              Ansari, Meshal and Schniering, Janine and Schiller, Herbert B. and
              Pe'er, Dana and Theis, Fabian J.},
    journal = {Nat. Methods},
    year = {2022},
    doi = {10.1038/s41592-021-01346-6},
    publisher = {Nature Publishing Group}

In addition, if you use cellrank.estimators.GPCCA to compute initial, terminal or intermediate states, you are using the pyGPCCA package [Reuter et al., 2022] under the hood, which implements the Generalized Perron Cluster Cluster Analysis (GPCCA) algorithm. Thus, additionally to CellRank, please cite GPCCA [Reuter et al., 2019] as:

    author = {Reuter,Bernhard  and Fackeldey,Konstantin  and Weber,Marcus },
    title = {Generalized Markov modeling of nonreversible molecular kinetics},
    journal = {The Journal of Chemical Physics},
    volume = {150},
    number = {17},
    pages = {174103},
    year = {2019},
    doi = {10.1063/1.5064530},