TransferSketchLabels: Transfer data from sketch data to full data

Description

This function transfers cell type labels from a sketched dataset to a full dataset based on the similarities in the lower dimensional space.

Usage

TransferSketchLabels(
  object,
  sketched.assay = "sketch",
  reduction,
  dims,
  refdata = NULL,
  k = 50,
  reduction.model = NULL,
  neighbors = NULL,
  recompute.neighbors = FALSE,
  recompute.weights = FALSE,
  verbose = TRUE
)

Value

A Seurat object with transferred labels stored in the metadata. If a UMAP model is provided, the full data are also projected onto the UMAP space, with the results stored in a new reduction, full.`reduction.model`

Arguments

object: A Seurat object.
sketched.assay: Sketched assay name. Default is 'sketch'.
reduction: Dimensional reduction name to use for label transfer.
dims: An integer vector indicating which dimensions to use for label transfer.
refdata: A list of character strings indicating the metadata columns containing labels to transfer. Default is NULL. Similar to refdata in `MapQuery`
k: Number of neighbors to use for label transfer. Default is 50.
reduction.model: Dimensional reduction model to use for label transfer. Default is NULL.
neighbors: An object storing the neighbors found during the sketching process. Default is NULL.
recompute.neighbors: Whether to recompute the neighbors for label transfer. Default is FALSE.
recompute.weights: Whether to recompute the weights for label transfer. Default is FALSE.
verbose: Print progress and diagnostic messages