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Applies a trained binary classifier to get per-cell probabilities.

ScoreCellsWithSavedModel.Rd

Applies a trained model to get per-cell probabilities.

Usage

ScoreCellsWithSavedModel(
  seuratObj,
  model,
  fieldToClass,
  batchSize = 20000,
  assayName = "RNA"
)

Arguments

seuratObj

The Seurat Object to be updated

model

Either the full filepath to a model RDS file, or the name of a built-in model.

fieldToClass

A list mapping the target field name in the seurat object to the classifier level. The latter is either numeric, or the string label. For example: list('CD4_T' = 1, 'CD8_T' = 2))

batchSize

To conserve memory, data will be chunked into batches of at most this many cells

assayName

The assay holding gene expression data