Run monocle2 on Seurat object
Usage
RunMonocle2(
SeuratObj,
max_components = 2,
root_clusters = NULL,
point_size = 0.5,
BEAM_analysis = FALSE,
BEAM_branch_point = 1,
save_plot = TRUE,
return_object = TRUE
)Arguments
- SeuratObj
A Seurat object
- max_components
the dimensionality of the reduced space. 2 as default.
- root_clusters
clusters selected as root
- point_size
point size of scatter plot
- BEAM_analysis
perform BEAM analysis or not.
- BEAM_branch_point
The ID of the branch point to analyze.
- save_plot
save plots to pdf or not.
- return_object
return CellDataSet object or not.