A simple heuristic feature selection procedure.
Select features with at least minCount
counts
in at least minCell
cells. A SingleCellExperiment
object with subset features will be stored in the
altExp slot with name altExpName
.
The name of the assay
slot in altExp
will be the same as useAssay
.
selectFeatures( x, minCount = 3, minCell = 3, useAssay = "counts", altExpName = "featureSubset" ) # S4 method for SingleCellExperiment selectFeatures( x, minCount = 3, minCell = 3, useAssay = "counts", altExpName = "featureSubset" ) # S4 method for matrix selectFeatures( x, minCount = 3, minCell = 3, useAssay = "counts", altExpName = "featureSubset" )
x | A numeric matrix of counts or a
SingleCellExperiment
with the matrix located in the assay slot under |
---|---|
minCount | Minimum number of counts required for feature selection. |
minCell | Minimum number of cells required for feature selection. |
useAssay | A string specifying the name of the assay slot to use. Default "counts". |
altExpName | The name for the altExp slot to use. Default "featureSubset". |
A SingleCellExperiment object with a
altExpName
altExp slot. Function
parameter settings are stored in the metadata
"select_features"
slot.