cnvSimPool: Generate a simulated pool of samples

In daynefiler/mcCNV: Call copy number variants from whole exome/whole genome sequencing data

Description

cnvSimPool is a convenience wrapper to generate a pool of samples from the same interval object to mimic a multiplexed capture.

Usage

cnvSimPool(
  nSubjects = 16L,
  countRange = c(8000000L, 14000000L),
  interval = cnvSimInterval(),
  seed = NULL,
  ...
)

Arguments

nSubjects	integer of length 1, the number of samples
countRange	integer of length 2, the bounds for the number of molecules per sample, see details
interval	data.table interval object with 'captureProb' field, see details
seed	integer, passed to set.seed()
...	passed to cnvSimCounts()

Details

The number of molecules per sample is drawn from a uniform distribution with the bounds given by 'countRange'.

The number of reads per sample is passed as the seed to cnvSimCounts. This allows the simulated pools to be completely reproducible.

See Also

cnvSimCounts cnvSimPool

daynefiler/mcCNV documentation built on Dec. 15, 2021, 3:58 a.m.