ti_gpfates: GPfates

In dynverse/dynmethods: A collection of trajectory inference methods

GPfates

Description

Will generate a trajectory using GPfates.

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

Usage

ti_gpfates(
  log_expression_cutoff = 0.5,
  min_cells_expression_cutoff = 0L,
  ndim = 2L
)

Arguments

log_expression_cutoff	The log expression cutoff. Domain: U(0.5, 5). Default: 0.5. Format: numeric.
min_cells_expression_cutoff	The min expression cutoff. Domain: U(0, 20). Default: 0. Format: numeric.
ndim	Number of dimensions for dimensionality reduction. Domain: U(1, 5). Default: 2. Format: integer.

Value

A TI method wrapper to be used together with infer_trajectory

References

Lönnberg, T., Svensson, V., James, K.R., Fernandez-Ruiz, D., Sebina, I., Montandon, R., Soon, M.S.F., Fogg, L.G., Nair, A.S., Liligeto, U.N., Stubbington, M.J.T., Ly, L.-H., Bagger, F.O., Zwiessele, M., Lawrence, N.D., Souza-Fonseca-Guimaraes, F., Bunn, P.T., Engwerda, C.R., Heath, W.R., Billker, O., Stegle, O., Haque, A., Teichmann, S.A., 2017. Single-cell RNA-seq and computational analysis using temporal mixture modeling resolves TH1/TFHfate bifurcation in malaria. Science Immunology 2, eaal2192.

dynverse/dynmethods documentation built on Jan. 18, 2024, 4:44 a.m.