Wanderlust

Will generate a trajectory using Wanderlust.

This method was wrapped inside a container. The original code of this method is available here.

ti_wanderlust(normalise = TRUE, knn = 25L,
  n_diffusion_components = 3L, n_pca_components = 30L, k = 25L,
  num_waypoints = 250L, epsilon = 1L)

Arguments

normalise

. Default: TRUE. Format: logical.
knn

K-nearest neighbours for diffusion. Domain: U(15, 100). Default: 25. Format: integer.
n_diffusion_components

Number of diffusion components. Domain: U(3, 20). Default: 3. Format: integer.
n_pca_components

Number of pca components. Domain: U(15, 100). Default: 30. Format: integer.
k

K parameter. Domain: U(15, 100). Default: 25. Format: integer.
num_waypoints

Number of waypoints. Domain: U(100, 500). Default: 250. Format: integer.
epsilon

Epsilon. Domain: U(0.1, 5). Default: 1. Format: numeric.

Value

A TI method wrapper to be used together with infer_trajectory

References

Bendall, S.C., Davis, K.L., Amir, E.D., Tadmor, M.D., Simonds, E.F., Chen, T.J., Shenfeld, D.K., Nolan, G.P., Pe’er, D., 2014. Single-Cell Trajectory Detection Uncovers Progression and Regulatory Coordination in Human B Cell Development. Cell 157, 714–725.