walkCells: Run CellWalker Method

In PFPrzytycki/CellWalkR: An R Package for Integrating and Visualizing Single-Cell and Bulk Data to Resolve Regulatory Elements

Run CellWalker Method

Description

walkCells applies the CellWalker method to the given cell-to-cell and cell-to-label edges.

Usage

walkCells(
  cellEdges,
  labelEdgesList,
  labelEdgeWeights,
  sampleDepth,
  steps,
  tensorflow = FALSE
)

Arguments

cellEdges	matrix of cell-to-cell similarity (c-by-c)
labelEdgesList	list of cell-to-label similarity matrices each with dimensions c-by-l
labelEdgeWeights	vector of weights to test for label edges
sampleDepth	depth to subsample cells to for faster calculation
steps	integer indicating number of steps to take if walk should not be run to convergence
tensorflow	boolean to indicate whether to compute on GPU

Value

cellWalk object with influence matrix and labels

Examples

data("SampleCellWalkRData")
labelEdgesList <- list(SampleCellWalkRData$labelEdges)
cellWalk <- walkCells(SampleCellWalkRData$cellEdges, labelEdgesList, 1)

PFPrzytycki/CellWalkR documentation built on Oct. 26, 2023, 1:50 p.m.