projectBulkATAC: Project Bulk ATAC-seq data into single cell subspace

In haibol2016/ArchR_debug: Analyzing single-cell regulatory chromatin in R.

Project Bulk ATAC-seq data into single cell subspace

Description

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

Usage

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.

haibol2016/ArchR_debug documentation built on June 15, 2022, 5:42 p.m.