addSeuratTrajectory: Add a Supervised Trajectory to an Seurat Object
In RyanYip-Kat/yipCat: Some function like ArchR style in Seurat Object

This function will fit a supervised trajectory in a lower dimensional space that can then be used for downstream analyses.

addSeuratTrajectory(
  object = NULL,
  name = "Trajectory",
  trajectory = NULL,
  groupBy = "Clusters",
  embedding = NULL,
  preFilterQuantile = 0.9,
  postFilterQuantile = 0.9,
  useAll = FALSE,
  dof = 250,
  spar = 1,
  force = FALSE,
  seed = 1
)

`name`	A string indicating the name of the fitted trajectory to be added in 'meta.data'.
`trajectory`	The order of cell groups to be used for constraining the initial supervised fitting procedure. For example, to get a trajectory from Cluster1 to Cluster2 to Cluster3, input should be c("Cluster1", "Cluster2", "Cluster3"). Cells will then be used from these 3 groups to constrain an initial fit in the group order.
`groupBy`	A string indicating the column name from 'meta.data' that contains the cell group definitions used in 'trajectory' to constrain the initial supervised fitting procedure.
`embedding`	A string indicating the name of the 'embedding' object from the 'seurat' that should be used for distance computation.
`preFilterQuantile`	Prior to the initial supervised trajectory fitting, cells whose euclidean distance from the cell-grouping center is above the provided quantile will be excluded.
`postFilterQuantile`	After initial supervised trajectory fitting, cells whose euclidean distance from the cell-grouping center is above the provided quantile will be excluded.
`useAll`	A boolean describing whether to use cells outside of trajectory groups for post-fitting procedure.
`dof`	The number of degrees of freedom to be used in the spline fit. See 'stats::smooth.spline()' for more information.
`spar`	The sparsity to be used in the spline fit. See 'stats::smooth.spline()' for more information.
`force`	A boolean value indicating whether to force the trajactory indicated by 'name' to be overwritten if it already exists in the given 'ArchRProject'.
`seed`	A number to be used as the seed for random number generation for trajectory creation.
`seurat`	An 'Seurat' object.