qctree_pre: QCtree pipeline in a convenient and automated form

In SinomeM/QCtreeCNV: Reducing the visual inspection effort in CNV calling

QCtree pipeline in a convenient and automated form

Description

All steps from the PennCNV raw data to the objects required by qctree()

Usage

qctree_pre(
  loci,
  calls,
  pennqc,
  samples_list,
  rm_dup = T,
  minsnp = 20,
  maxgap = 0.5,
  minoverlap = 0.2
)

Details

Please note that at the moment having the input in the required format is still something the user needs to take care of. Only defaults values for each step are supported at the moment (will change soon)

SinomeM/QCtreeCNV documentation built on Dec. 5, 2023, 4:06 p.m.