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

Pre-compute the global means for bootstrapping compartments

Usage

precomputeBootstrapMeans(
  obj,
  targets = NULL,
  num.bootstraps = 100,
  assay = c("atac", "rna", "array"),
  parallel = FALSE,
  num.cores = 1
)

Arguments

obj: Input SummarizedExperiment object
targets: Optional targets to shrink towards
num.bootstraps: The number of bootstraps to compute
assay: What type of assay the data are from
parallel: Whether to run in parallel
num.cores: How many cores to use for parallel processing

Value

A matrix of bootstrapped global means

Examples

data("k562_scrna_chr14", package = "compartmap")
scrna.bootstrap.global.means <- precomputeBootstrapMeans(
  k562_scrna_chr14,
  assay = "rna",
  num.bootstraps = 2
)
#> Working on bootstrap 1
#> Working on bootstrap 2