For up-to-date PHATE code, please see https://github.com/KrishnaswamyLab/PHATE.
For any use of PHATE, please cite the following:
K.R. Moon, D. van Dijk, Z. Wang, S. Gigante, D. Burkhardt, W. Chen, K. Yim, A. van den Elzen, M.J. Hirn, R.R. Coifman, N.B. Ivanova, G. Wolf, S. Krishnaswamy, "Visualizing Transitions and Structure for Biological Data Exploration," Nature Biotechnology, vol. 37, no. 12, pp. 1482-1492, Dec. 2019.