Project Bulk ATAC-seq data into single cell subspace

This function will Project Bulk ATAC-seq data into single cell subspace.

projectBulkATAC(
  ArchRProj = NULL,
  seATAC = NULL,
  reducedDims = "IterativeLSI",
  embedding = "UMAP",
  n = 250,
  verbose = TRUE,
  threads = getArchRThreads(),
  logFile = createLogFile("projectBulkATAC")
)

Arguments

ArchRProj

An ArchRProject object containing the dimensionality reduction matrix passed by reducedDims.

seATAC

Bulk ATAC Summarized Experiment.

reducedDims

A string specifying the reducedDims.

embedding

A string specifying embedding.

n

An integer specifying the number of subsampled "pseudo single cells" per bulk sample.

verbose

A boolean value indicating whether to use verbose output during execution of this function. Can be set to FALSE for a cleaner output.

threads

The number of threads used for parallel execution

logFile

The path to a file to be used for logging ArchR output.