Inferring a trajectory inference using pCreode

Will generate a trajectory using pCreode.

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

ti_pcreode(n_pca_components = 3L, radius = 1L, noise = 8L,
  target = 25L, num_runs = 10L, run_environment = NULL)

Arguments

n_pca_components	integer; (default: 3L; range: from 2L to 10L)
radius	numeric; (default: 1L; range: from 0.01 to 10L)
noise	numeric; (default: 8L; range: from 1L to 20L)
target	numeric; (default: 25L; range: from 5L to 100L)
num_runs	integer; (default: 10L; range: from 10L to 1000L)
run_environment	In which environment to run the method, can be "docker" or "singularity".

Value

A TI method wrapper to be used together with infer_trajectory

References

Herring, C.A., Banerjee, A., McKinley, E.T., Simmons, A.J., Ping, J., Roland, J.T., Franklin, J.L., Liu, Q., Gerdes, M.J., Coffey, R.J., Lau, K.S., 2018. Unsupervised Trajectory Analysis of Single-Cell RNA-Seq and Imaging Data Reveals Alternative Tuft Cell Origins in the Gut. Cell Systems 6, 37–51.e9.