getMonocleTrajectories.Rd
This function will use monocle3 to find trajectories and then returns a monocle CDS object that can be used as
input for addMonocleTrajectory
.
getMonocleTrajectories( ArchRProj = NULL, name = "Trajectory", useGroups = NULL, principalGroup = NULL, groupBy = NULL, embedding = NULL, clusterParams = list(), graphParams = list(), seed = 1 )
ArchRProj | An |
---|---|
name | A string indicating the name of the fitted trajectory. |
useGroups | A character vector that is used to select a subset of groups by name from the designated |
principalGroup | The principal group which represents the group that will be the starting point for all trajectories. |
groupBy | A string indicating the column name from |
embedding | A string indicating the name of the |
clusterParams | A list of parameters to be added when clustering cells for monocle3 with |
graphParams | A list of parameters to be added when learning graphs for monocle3 with |
seed | A number to be used as the seed for random number generation for trajectory creation. |