Construct Pseudo bulk samples -- random

Source: R/Basic_Functions.R

Construct Pseudo bulk samples by random sampled number of cells per subject, but based on the actual numbers.

generateBulk_norep(
  eset,
  ct.varname,
  sample,
  disease = NULL,
  ct.sub,
  prop_mat = NULL,
  nbulk = 10,
  samplewithRep = F
)

Arguments

eset

ExpressionSet object for single cells
ct.varname

variable name for 'cell types'
sample

variable name for subject/samples
disease

indicate the health condition of subjects
ct.sub

a subset of cell types that are selected to construct pseudo bulk samples. If NULL, then all cell types are used.
prop_mat

manually input the cell-type proportion for pseudo bulk samples
nbulk

number of pseudo bulk samples to be constructed
samplewithRep

logical, randomly sample single cells with replacement. Default is F.

Value

pseudo bulk samples ExpressionSet, and actual cell-type proportions