defLeafCells: definition of leaf cells
In JhuangLab/flowSpy: A Toolkit for Flow And Mass Cytometry Data

Description Usage Arguments Value Examples

definition of root cells

1	defLeafCells(object, leaf.cells = NULL, pseudotime.cutoff = 0, verbose = FALSE)

`object`	an FSPY object
`leaf.cells`	character or numeric. Cell name of the root cells or cluster.id of root.cells
`pseudotime.cutoff`	numeric. Cutoff of pseudotime. Cells with pseudotime over pseudotime.cutoff will be set to be leaf cells
`verbose`	logical. Whether to print calculation progress.

An FSPY object

if (FALSE) {
# Define leaf cells by cluster
fspy <- defLeafCells(fspy, leaf.cells = 1, verbose = TRUE)
fspy <- defLeafCells(fspy, leaf.cells = c(1,3), verbose = TRUE)

# Define root cells by cell names
cells <- test.meta.data$cell[which(test.meta.data$stage == "D10")]
cells <- as.character(cells)
fspy <- defLeafCells(fspy, leaf.cells = cells, verbose = TRUE)
}