ti_gpfates.RdWill generate a trajectory using GPfates.
This method was wrapped inside a container. The original code of this method is available here.
ti_gpfates(log_expression_cutoff = 0.5, min_cells_expression_cutoff = 0L, ndim = 2L)
| 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. |
A TI method wrapper to be used together with
infer_trajectory
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.