Get the predicted identity — GetTransferPredictions • Seurat

Utility function to easily pull out the name of the class with the maximum prediction. This is useful if you've set prediction.assay = TRUE in TransferData and want to have a vector with the predicted class.

GetTransferPredictions(
  object,
  assay = "predictions",
  slot = "data",
  score.filter = 0.75
)

Arguments

object: Seurat object
assay: Name of the assay holding the predictions
slot: Slot of the assay in which the prediction scores are stored
score.filter: Return "Unassigned" for any cell with a score less than this value

Value

Returns a vector of predicted class names

Examples

if (FALSE) {
  prediction.assay <- TransferData(anchorset = anchors, refdata = reference$class)
  query[["predictions"]] <- prediction.assay
  query$predicted.id <- GetTransferPredictions(query)
}