Pre-compute the global means for bootstrapping compartments — precomputeBootstrapMeans • compartmap

Pre-compute the global means for bootstrapping compartments

Usage

precomputeBootstrapMeans(
  obj,
  BPPARAM,
  targets = NULL,
  num.bootstraps = 100,
  assay = c("atac", "rna", "array")
)

Arguments

obj: Input SummarizedExperiment object
BPPARAM: BiocParallelParam for parallelizing computation
targets: Optional targets to shrink towards
num.bootstraps: The number of bootstraps to compute
assay: What type of assay the data are from

Value

A matrix of bootstrapped global means

Examples

data("k562_scrna_chr14", package = "compartmap")
scrna.bootstrap.global.means <- precomputeBootstrapMeans(
  k562_scrna_chr14,
  BPPARAM = BiocParallel::SerialParam(),
  assay = "rna",
  num.bootstraps = 2
)