slingPseudotime {slingshot} | R Documentation |
Extract the matrix of pseudotime values or cells' weights along each lineage.
slingPseudotime(x, ...) slingCurveWeights(x, ...) ## S4 method for signature 'SlingshotDataSet' slingPseudotime(x, na = TRUE) ## S4 method for signature 'SingleCellExperiment' slingPseudotime(x, na = TRUE) ## S4 method for signature 'SlingshotDataSet' slingCurveWeights(x, as.probs = FALSE) ## S4 method for signature 'SingleCellExperiment' slingCurveWeights(x)
x |
an object containing |
... |
additional parameters to be passed to object-specific methods. |
na |
logical. If |
as.probs |
logical. If |
an n
by L
matrix representing each cell's pseudotime
along each lineage.
an n
by L
matrix of cell weights along
each lineage.
SlingshotDataSet
: returns the matrix of pseudotime values from a
SlingshotDataSet
object.
SingleCellExperiment
: returns the matrix of pseudotime values from a
SingleCellExperiment
object.
SlingshotDataSet
: returns the matrix of cell weights along each
lineage from a SlingshotDataSet
object.
SingleCellExperiment
: returns the matrix of cell weights along each
lineage from a SingleCellExperiment
object.
data("slingshotExample") rd <- slingshotExample$rd cl <- slingshotExample$cl sds <- slingshot(rd, cl) slingPseudotime(sds) data("slingshotExample") rd <- slingshotExample$rd cl <- slingshotExample$cl sds <- slingshot(rd, cl) slingCurveWeights(sds)