Construct a dictionary representation for each unimodal dataset

Usage

BridgeCellsRepresentation(
  object.list,
  bridge.object,
  object.reduction,
  bridge.reduction,
  laplacian.reduction = "lap",
  laplacian.dims = 1:50,
  bridge.assay.name = "Bridge",
  return.all.assays = FALSE,
  l2.norm = TRUE,
  verbose = TRUE
)

Arguments

object.list: A list of Seurat objects
bridge.object: A multi-omic bridge Seurat which is used as the basis to represent unimodal datasets
object.reduction: A list of dimensional reductions from object.list used to be reconstructed by bridge.object
bridge.reduction: A list of dimensional reductions from bridge.object used to reconstruct object.reduction
laplacian.reduction: Name of bridge graph laplacian dimensional reduction
laplacian.dims: Dimensions used for bridge graph laplacian dimensional reduction
bridge.assay.name: Assay name used for bridge object reconstruction value (default is 'Bridge')
return.all.assays: Whether to return all assays in the object.list. Only bridge assay is returned by default.
l2.norm: Whether to l2 normalize the dictionary representation
verbose: Print messages and progress

Value

Returns a object list in which each object has a bridge cell derived assay